From 5a74c30628cb87ff8db87f0db64e18b7bbdd767a Mon Sep 17 00:00:00 2001 From: David Benjamin Date: Thu, 28 Feb 2019 16:01:23 -0500 Subject: [PATCH] clean-up after rebase --- .../tools/walkers/CombineGVCFs.java | 13 +- .../tools/walkers/GenotypeGVCFs.java | 4 +- ...ferenceConfidenceVariantContextMerger.java | 9 +- .../tools/walkers/mutect/Mutect2Engine.java | 4 +- .../filtering/FragmentLengthFilter.java | 4 +- .../filtering/MappingQualityFilter.java | 4 +- .../filtering/Mutect2FilteringEngine.java | 8 + .../mutect/filtering/ReadPositionFilter.java | 4 +- .../BetaBinomialDistribution.java | 17 - .../utils/variant/GATKVCFConstants.java | 4 +- .../utils/variant/GATKVCFHeaderLines.java | 3 +- .../walkers/CombineGVCFsIntegrationTest.java | 1 - .../walkers/GenotypeGVCFsIntegrationTest.java | 3 +- .../CombineGVCFs/NA12878.MT.filtered.g.vcf | 622 ++++--- .../NA12878.MT.filtered.g.vcf.idx | Bin 3791 -> 216 bytes .../CombineGVCFs/NA12891.MT.filtered.g.vcf | 842 +++++---- .../NA12891.MT.filtered.g.vcf.idx | Bin 3689 -> 216 bytes .../CombineGVCFs/NA19240.MT.filtered.g.vcf | 1034 ++++++----- .../NA19240.MT.filtered.g.vcf.idx | Bin 3730 -> 216 bytes .../walkers/CombineGVCFs/twoSamples.MT.g.vcf | 1552 ++++++++--------- .../CombineGVCFs/twoSamples.MT.g.vcf.idx | Bin 4688 -> 210 bytes 21 files changed, 2056 insertions(+), 2072 deletions(-) diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs.java index 41f07f77068..18350c682d8 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs.java @@ -5,7 +5,10 @@ import htsjdk.samtools.util.Locatable; import htsjdk.variant.variantcontext.*; import htsjdk.variant.variantcontext.writer.VariantContextWriter; -import htsjdk.variant.vcf.*; +import htsjdk.variant.vcf.VCFConstants; +import htsjdk.variant.vcf.VCFHeader; +import htsjdk.variant.vcf.VCFHeaderLine; +import htsjdk.variant.vcf.VCFStandardHeaderLines; import org.broadinstitute.barclay.argparser.Argument; import org.broadinstitute.barclay.argparser.ArgumentCollection; import org.broadinstitute.barclay.argparser.CommandLineProgramProperties; @@ -16,13 +19,13 @@ import org.broadinstitute.hellbender.engine.MultiVariantWalkerGroupedOnStart; import org.broadinstitute.hellbender.engine.ReferenceContext; import org.broadinstitute.hellbender.exceptions.UserException; -import org.broadinstitute.hellbender.tools.walkers.annotator.*; -import org.broadinstitute.hellbender.tools.walkers.mutect.M2FiltersArgumentCollection; -import org.broadinstitute.hellbender.tools.walkers.mutect.Mutect2FilteringEngine; +import org.broadinstitute.hellbender.tools.walkers.annotator.Annotation; +import org.broadinstitute.hellbender.tools.walkers.annotator.StandardAnnotation; +import org.broadinstitute.hellbender.tools.walkers.annotator.VariantAnnotatorEngine; +import org.broadinstitute.hellbender.tools.walkers.mutect.filtering.Mutect2FilteringEngine; import org.broadinstitute.hellbender.utils.IntervalUtils; import org.broadinstitute.hellbender.utils.SimpleInterval; import org.broadinstitute.hellbender.utils.genotyper.IndexedSampleList; -import org.broadinstitute.hellbender.utils.variant.GATKVCFConstants; import org.broadinstitute.hellbender.utils.variant.GATKVCFHeaderLines; import org.broadinstitute.hellbender.utils.variant.GATKVariantContextUtils; diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFs.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFs.java index 660278c7fa6..36780ae1cd4 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFs.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFs.java @@ -16,7 +16,7 @@ import org.broadinstitute.hellbender.tools.walkers.genotyper.*; import org.broadinstitute.hellbender.tools.walkers.genotyper.afcalc.GeneralPloidyFailOverAFCalculatorProvider; import org.broadinstitute.hellbender.tools.walkers.mutect.M2ArgumentCollection; -import org.broadinstitute.hellbender.tools.walkers.mutect.M2FiltersArgumentCollection; +import org.broadinstitute.hellbender.tools.walkers.mutect.filtering.M2FiltersArgumentCollection; import org.broadinstitute.hellbender.utils.GATKProtectedVariantContextUtils; import org.broadinstitute.hellbender.utils.SimpleInterval; import org.broadinstitute.hellbender.utils.Utils; @@ -118,7 +118,7 @@ public final class GenotypeGVCFs extends VariantLocusWalker { */ @Argument(fullName=M2ArgumentCollection.EMISSION_LOD_LONG_NAME, shortName = M2ArgumentCollection.EMISSION_LOG_SHORT_NAME, doc = "LOD threshold to emit variant to VCF.") - protected double tlodThreshold = 0.8 * M2FiltersArgumentCollection.DEFAULT_TLOD_FILTER_THRESHOLD; //allow for some lower quality variants + protected double tlodThreshold = 3.5; //allow for some lower quality variants /** diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/ReferenceConfidenceVariantContextMerger.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/ReferenceConfidenceVariantContextMerger.java index 95fc6ca5692..39e0bfad3b5 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/ReferenceConfidenceVariantContextMerger.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/ReferenceConfidenceVariantContextMerger.java @@ -5,7 +5,10 @@ import com.google.common.primitives.Ints; import htsjdk.samtools.util.Locatable; import htsjdk.variant.variantcontext.*; -import htsjdk.variant.vcf.*; +import htsjdk.variant.vcf.VCFConstants; +import htsjdk.variant.vcf.VCFHeader; +import htsjdk.variant.vcf.VCFHeaderLineCount; +import htsjdk.variant.vcf.VCFInfoHeaderLine; import org.broadinstitute.hellbender.exceptions.UserException; import org.broadinstitute.hellbender.tools.walkers.annotator.AnnotationUtils; import org.broadinstitute.hellbender.tools.walkers.annotator.VariantAnnotatorEngine; @@ -13,7 +16,7 @@ import org.broadinstitute.hellbender.tools.walkers.annotator.allelespecific.ReducibleAnnotationData; import org.broadinstitute.hellbender.tools.walkers.genotyper.GenotypeLikelihoodCalculator; import org.broadinstitute.hellbender.tools.walkers.genotyper.GenotypeLikelihoodCalculators; -import org.broadinstitute.hellbender.tools.walkers.mutect.Mutect2FilteringEngine; +import org.broadinstitute.hellbender.tools.walkers.mutect.filtering.Mutect2FilteringEngine; import org.broadinstitute.hellbender.utils.GATKProtectedVariantContextUtils; import org.broadinstitute.hellbender.utils.Utils; import org.broadinstitute.hellbender.utils.logging.OneShotLogger; @@ -44,8 +47,6 @@ public final class ReferenceConfidenceVariantContextMerger { private static final List SOMATIC_FORMAT_ANNOTATIONS_TO_KEEP = Arrays.asList( GATKVCFConstants.ORIGINAL_CONTIG_MISMATCH_KEY, - GATKVCFConstants.STRAND_ARTIFACT_AF_KEY, - GATKVCFConstants.STRAND_ARTIFACT_POSTERIOR_KEY, GATKVCFConstants.HAPLOTYPE_CALLER_PHASING_GT_KEY, GATKVCFConstants.HAPLOTYPE_CALLER_PHASING_ID_KEY, VCFConstants.PHASE_SET_KEY); diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/Mutect2Engine.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/Mutect2Engine.java index a651c0014f8..c8fcfd40b95 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/Mutect2Engine.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/Mutect2Engine.java @@ -63,8 +63,8 @@ public final class Mutect2Engine implements AssemblyRegionEvaluator { private static final List STANDARD_MUTECT_INFO_FIELDS = Arrays.asList(GATKVCFConstants.NORMAL_LOD_KEY, GATKVCFConstants.TUMOR_LOD_KEY, GATKVCFConstants.NORMAL_ARTIFACT_LOD_ATTRIBUTE, GATKVCFConstants.EVENT_COUNT_IN_HAPLOTYPE_KEY, GATKVCFConstants.IN_PON_VCF_ATTRIBUTE, GATKVCFConstants.POPULATION_AF_VCF_ATTRIBUTE, GATKVCFConstants.GERMLINE_QUAL_VCF_ATTRIBUTE, GATKVCFConstants.CONTAMINATION_QUAL_ATTRIBUTE, GATKVCFConstants.SEQUENCING_QUAL_VCF_ATTRIBUTE, - GATKVCFConstants.POLYMERASE_SLIPPAGE_QUAL_VCF_ATTRIBUTE, - GATKVCFConstants.STRAND_QUAL_VCF_ATTRIBUTE, GATKVCFConstants.ORIGINAL_CONTIG_MISMATCH_KEY, GATKVCFConstants.N_COUNT_KEY, GATKVCFConstants.UNIQUE_ALT_READ_SET_COUNT_KEY, GATKVCFConstants.STRAND_ARTIFACT_POSTERIOR_KEY); + GATKVCFConstants.POLYMERASE_SLIPPAGE_QUAL_VCF_ATTRIBUTE, GATKVCFConstants.FORWARD_STRAND_COUNT_KEY, + GATKVCFConstants.STRAND_QUAL_VCF_ATTRIBUTE, GATKVCFConstants.ORIGINAL_CONTIG_MISMATCH_KEY, GATKVCFConstants.N_COUNT_KEY, GATKVCFConstants.UNIQUE_ALT_READ_SET_COUNT_KEY); private static final String MUTECT_VERSION = "2.2"; public static final String TUMOR_SAMPLE_KEY_IN_VCF_HEADER = "tumor_sample"; diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/FragmentLengthFilter.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/FragmentLengthFilter.java index 055f5d155b8..3dffef00fb9 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/FragmentLengthFilter.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/FragmentLengthFilter.java @@ -19,7 +19,7 @@ public FragmentLengthFilter(final double maxMedianFragmentLengthDifference) { @Override public boolean isArtifact(final VariantContext vc, final Mutect2FilteringEngine filteringEngine) { - final List fragmentLengthByAllele = vc.getAttributeAsIntList(FragmentLength.KEY, 0); + final List fragmentLengthByAllele = vc.getAttributeAsIntList(GATKVCFConstants.MEDIAN_FRAGMENT_LENGTH_KEY, 0); return Math.abs(fragmentLengthByAllele.get(1) - fragmentLengthByAllele.get(0)) > maxMedianFragmentLengthDifference; } @@ -30,5 +30,5 @@ public String filterName() { } @Override - protected List requiredAnnotations() { return Collections.singletonList(FragmentLength.KEY); } + protected List requiredAnnotations() { return Collections.singletonList(GATKVCFConstants.MEDIAN_FRAGMENT_LENGTH_KEY); } } diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/MappingQualityFilter.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/MappingQualityFilter.java index 2265edbfc96..8d90e00fee4 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/MappingQualityFilter.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/MappingQualityFilter.java @@ -23,7 +23,7 @@ public MappingQualityFilter(final double minMedianMappingQuality, final int long public boolean isArtifact(final VariantContext vc, final Mutect2FilteringEngine filteringEngine) { final List indelLengths = vc.getIndelLengths(); final int indelLength = indelLengths == null ? 0 : indelLengths.stream().mapToInt(Math::abs).max().orElseGet(() -> 0); - final List mappingQualityByAllele = vc.getAttributeAsIntList(MappingQuality.KEY, 0); + final List mappingQualityByAllele = vc.getAttributeAsIntList(GATKVCFConstants.MEDIAN_MAPPING_QUALITY_KEY, 0); // we use the mapping quality annotation of the alt allele in most cases, but for long indels we use the reference // annotation. We have to do this because the indel, even if it maps uniquely, gets a poor mapping quality @@ -37,5 +37,5 @@ public String filterName() { } @Override - protected List requiredAnnotations() { return Collections.singletonList(MappingQuality.KEY); } + protected List requiredAnnotations() { return Collections.singletonList(GATKVCFConstants.MEDIAN_MAPPING_QUALITY_KEY); } } diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/Mutect2FilteringEngine.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/Mutect2FilteringEngine.java index d26a2bd6123..9045b829cd5 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/Mutect2FilteringEngine.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/Mutect2FilteringEngine.java @@ -27,6 +27,14 @@ public class Mutect2FilteringEngine { private final List filters = new ArrayList<>(); private final Set normalSamples; + public static final List STANDARD_MUTECT_INFO_FIELDS_FOR_FILTERING = Arrays.asList( + GATKVCFConstants.MEDIAN_MAPPING_QUALITY_KEY, + GATKVCFConstants.MEDIAN_BASE_QUALITY_KEY, + GATKVCFConstants.MEDIAN_READ_POSITON_KEY, + GATKVCFConstants.MEDIAN_FRAGMENT_LENGTH_KEY, + GATKVCFConstants.FORWARD_STRAND_COUNT_KEY + ); + /** * DATA ACCUMULATED AND LEARNED ON EACH PASS OF {@link FilterMutectCalls} */ diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/ReadPositionFilter.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/ReadPositionFilter.java index 20449bd5cc3..fbfdfc0fe7c 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/ReadPositionFilter.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/mutect/filtering/ReadPositionFilter.java @@ -19,7 +19,7 @@ public ReadPositionFilter(final double minMedianReadPosition) { @Override public boolean isArtifact(final VariantContext vc, final Mutect2FilteringEngine filteringEngine) { - final List readPositionByAllele = vc.getAttributeAsIntList(ReadPosition.KEY, 0); + final List readPositionByAllele = vc.getAttributeAsIntList(GATKVCFConstants.MEDIAN_READ_POSITON_KEY, 0); // a negative value is possible due to a bug: https://github.com/broadinstitute/gatk/issues/5492 return readPositionByAllele.get(0) > -1 && readPositionByAllele.get(0) < minMedianReadPosition; @@ -31,5 +31,5 @@ public String filterName() { } @Override - protected List requiredAnnotations() { return Collections.singletonList(ReadPosition.KEY); } + protected List requiredAnnotations() { return Collections.singletonList(GATKVCFConstants.MEDIAN_READ_POSITON_KEY); } } diff --git a/src/main/java/org/broadinstitute/hellbender/tools/walkers/validation/basicshortmutpileup/BetaBinomialDistribution.java b/src/main/java/org/broadinstitute/hellbender/tools/walkers/validation/basicshortmutpileup/BetaBinomialDistribution.java index 7e4999771c1..b3c0170d8f3 100644 --- a/src/main/java/org/broadinstitute/hellbender/tools/walkers/validation/basicshortmutpileup/BetaBinomialDistribution.java +++ b/src/main/java/org/broadinstitute/hellbender/tools/walkers/validation/basicshortmutpileup/BetaBinomialDistribution.java @@ -74,23 +74,6 @@ public double logProbability(int k) { CombinatoricsUtils.binomialCoefficientLog(n,k) + Beta.logBeta(k+alpha, n - k + beta) - Beta.logBeta(alpha, beta); } - /** - * @param k number of successes. Must be positive or zero. - * @return the value of the natural log pdf at k - */ - @Override - public double logProbability(int k) { - - ParamUtils.isPositiveOrZero(k, "Number of successes must be greater than or equal to zero."); - - // nchoosek * beta(k+alpha, n-k+beta)/ beta(alpha, beta) - // binomialcoefficient is "n choose k" - if (k > n) { - return Double.NEGATIVE_INFINITY; - } - return max(Double.NEGATIVE_INFINITY, CombinatoricsUtils.binomialCoefficientLog(n, k) + Beta.logBeta(k+alpha, n - k + beta) - Beta.logBeta(alpha, beta)); - } - /** * @param k number of successes. Must be positive or zero. * @return the value of the cdf at k diff --git a/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFConstants.java b/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFConstants.java index 9d0acd81f7b..f4cb1134cac 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFConstants.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFConstants.java @@ -117,9 +117,11 @@ public final class GATKVCFConstants { public static final String ORIGINAL_CONTIG_MISMATCH_KEY = "OCM"; public static final String N_COUNT_KEY = "NCount"; public static final String UNIQUE_ALT_READ_SET_COUNT_KEY = "UNIQ_ALT_READ_COUNT"; - public static final String STRAND_ARTIFACT_POSTERIOR_KEY = "SAPP"; // Strand Artifact Filter public static final String MEDIAN_BASE_QUALITY_KEY = "MBQ"; + public static final String MEDIAN_MAPPING_QUALITY_KEY = "MMQ"; public static final String FORWARD_STRAND_COUNT_KEY = "FWD"; + public static final String MEDIAN_FRAGMENT_LENGTH_KEY = "MFRL"; + public static final String MEDIAN_READ_POSITON_KEY = "MPOS"; // FORMAT keys public static final String ALLELE_BALANCE_KEY = "AB"; diff --git a/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFHeaderLines.java b/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFHeaderLines.java index df78efd46eb..a209a86f3d4 100644 --- a/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFHeaderLines.java +++ b/src/main/java/org/broadinstitute/hellbender/utils/variant/GATKVCFHeaderLines.java @@ -123,7 +123,6 @@ public static VCFFormatHeaderLine getEquivalentFormatHeaderLine(final String inf addFormatLine(new VCFFormatHeaderLine(ALLELE_FRACTION_KEY, VCFHeaderLineCount.A, VCFHeaderLineType.Float, "Allele fractions of alternate alleles in the tumor")); addFormatLine(new VCFFormatHeaderLine(F1R2_KEY, VCFHeaderLineCount.R, VCFHeaderLineType.Integer, "Count of reads in F1R2 pair orientation supporting each allele")); addFormatLine(new VCFFormatHeaderLine(F2R1_KEY, VCFHeaderLineCount.R, VCFHeaderLineType.Integer, "Count of reads in F2R1 pair orientation supporting each allele")); - addFormatLine(new VCFFormatHeaderLine(STRAND_ARTIFACT_POSTERIOR_KEY, 3, VCFHeaderLineType.Float, "posterior probabilities of the presence of strand artifact")); addFormatLine(new VCFFormatHeaderLine(ROF_POSTERIOR_KEY, 1, VCFHeaderLineType.Float, "posterior probability of read orientation-based artifacts")); addFormatLine(new VCFFormatHeaderLine(ROF_PRIOR_KEY, 1, VCFHeaderLineType.Float, "prior probability of read orientation-based artifacts under the present referene context")); addFormatLine(new VCFFormatHeaderLine(ROF_TYPE_KEY, 1, VCFHeaderLineType.String, "type of read orientation artifact (F1R2 or F2R1)")); @@ -226,7 +225,7 @@ public static VCFFormatHeaderLine getEquivalentFormatHeaderLine(final String inf addInfoLine(new VCFInfoHeaderLine(ORIGINAL_CONTIG_MISMATCH_KEY, 1, VCFHeaderLineType.Integer, "Number of alt reads whose original alignment doesn't match the current contig.")); addInfoLine(new VCFInfoHeaderLine(N_COUNT_KEY, 1, VCFHeaderLineType.Integer, "Count of N bases in the pileup")); addInfoLine(new VCFInfoHeaderLine(UNIQUE_ALT_READ_SET_COUNT_KEY, 1, VCFHeaderLineType.Integer, "Number of ALT reads with unique start and mate end positions at a variant site")); - addInfoLine(new VCFInfoHeaderLine(STRAND_ARTIFACT_POSTERIOR_KEY, 3, VCFHeaderLineType.Float, "posterior probabilities of the presence of strand artifact")); + addInfoLine(new VCFInfoHeaderLine(FORWARD_STRAND_COUNT_KEY, VCFHeaderLineCount.R, VCFHeaderLineType.Integer, "forward strand counts of each allele")); addInfoLine(new BaseQuality().getDescriptions().get(0)); addInfoLine(new FragmentLength().getDescriptions().get(0)); addInfoLine(new MappingQuality().getDescriptions().get(0)); diff --git a/src/test/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFsIntegrationTest.java b/src/test/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFsIntegrationTest.java index 4ef7166173d..7a0e96178be 100644 --- a/src/test/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFsIntegrationTest.java +++ b/src/test/java/org/broadinstitute/hellbender/tools/walkers/CombineGVCFsIntegrationTest.java @@ -468,7 +468,6 @@ public void testCombineSomaticGvcfs() throws Exception { if (vc.getStart() == 14872) { Assert.assertTrue(!vc.isFiltered()); Assert.assertTrue(!vc.getGenotype(0).isFiltered()); - Assert.assertTrue(vc.getGenotype(1).getFilters().contains(GATKVCFConstants.TUMOR_LOD_FILTER_NAME)); } } diff --git a/src/test/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFsIntegrationTest.java b/src/test/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFsIntegrationTest.java index 2a8c3ce8dbd..894ae816f6e 100644 --- a/src/test/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFsIntegrationTest.java +++ b/src/test/java/org/broadinstitute/hellbender/tools/walkers/GenotypeGVCFsIntegrationTest.java @@ -14,7 +14,6 @@ import org.broadinstitute.hellbender.CommandLineProgramTest; import org.broadinstitute.hellbender.cmdline.StandardArgumentDefinitions; import org.broadinstitute.hellbender.engine.FeatureDataSource; -import org.broadinstitute.hellbender.tools.walkers.mutect.M2FiltersArgumentCollection; import org.broadinstitute.hellbender.utils.GATKProtectedVariantContextUtils; import org.broadinstitute.hellbender.utils.SimpleInterval; import org.broadinstitute.hellbender.utils.Utils; @@ -49,7 +48,7 @@ public class GenotypeGVCFsIntegrationTest extends CommandLineProgramTest { private static final String BASE_PAIR_EXPECTED = "gvcf.basepairResolution.gatk3.7_30_ga4f720357.output.vcf"; private static final String b38_reference_20_21 = largeFileTestDir + "Homo_sapiens_assembly38.20.21.fasta"; private static final String BASE_PAIR_GVCF = "gvcf.basepairResolution.gvcf"; - private static final double TLOD_THRESHOLD = 0.8 * M2FiltersArgumentCollection.DEFAULT_TLOD_FILTER_THRESHOLD; + private static final double TLOD_THRESHOLD = 4.0; private static final File CEUTRIO_20_21_GATK3_4_G_VCF = new File(largeFileTestDir, "gvcfs/CEUTrio.20.21.gatk3.4.g.vcf"); private static final String CEUTRIO_20_21_EXPECTED_VCF = "CEUTrio.20.21.gatk3.7_30_ga4f720357.expected.vcf"; diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12878.MT.filtered.g.vcf b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12878.MT.filtered.g.vcf index dbcc27cebd1..cd295314fc5 100644 --- a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12878.MT.filtered.g.vcf +++ b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12878.MT.filtered.g.vcf @@ -63,8 +63,6 @@ ##INFO= ##INFO= ##INFO= -##INFO= -##INFO= ##INFO= ##INFO= ##INFO= @@ -175,13 +173,13 @@ MT 31 . C . . END=31 GT:DP:MIN_DP:TLOD 0/0:1338:1338:-3.107e+00 MT 32 . A . . END=34 GT:DP:MIN_DP:TLOD 0/0:1435:1360:-2.827e+00 MT 35 . G . . END=35 GT:DP:MIN_DP:TLOD 0/0:1576:1576:-1.333e+00 MT 36 . G . . END=36 GT:DP:MIN_DP:TLOD 0/0:1614:1614:-2.286e+00 -MT 37 . A G, . base_quality;t_lod CONTQ=93;DP=1594;ECNT=4;MBQ=27,6,0;MFRL=575,15999,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.242e-03;SAPP=3.734e-04,4.515e-03,0.995;TLOD=-2.556e+00,-2.886e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1508,11,0:1.092e-03,6.494e-04:1519:674,7,0:834,4,0 +MT 37 . A G, . base_quality;t_lod CONTQ=93;DP=1594;ECNT=4;MBQ=27,6,0;MFRL=575,15999,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-2.556e+00,-2.886e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1508,11,0:1.092e-03,6.494e-04:1519:674,7,0:834,4,0 MT 38 . G . . END=39 GT:DP:MIN_DP:TLOD 0/0:1554:1534:-3.194e+00 -MT 40 . T G, . t_lod CONTQ=93;DP=1709;ECNT=4;MBQ=28,21,0;MFRL=562,16148,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.00,5.851e-04;SAPP=1.826e-04,5.519e-04,0.999;TLOD=-1.650e+00,-2.932e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:1708,1,0:1.148e-03,5.841e-04:1709:766,1,0:942,0,0:0|1:40_T_G:40 +MT 40 . T G, . t_lod CONTQ=93;DP=1709;ECNT=4;MBQ=28,21,0;MFRL=562,16148,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-1.650e+00,-2.932e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:1708,1,0:1.148e-03,5.841e-04:1709:766,1,0:942,0,0:0|1:40_T_G:40 MT 41 . C . . END=42 GT:DP:MIN_DP:TLOD 0/0:1678:1657:-3.231e+00 -MT 43 . C A, . t_lod CONTQ=93;DP=1833;ECNT=4;MBQ=27,27,0;MFRL=532,16148,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.00,5.456e-04;SAPP=1.650e-04,5.440e-04,0.999;TLOD=-1.710e+00,-2.963e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:1832,1,0:1.069e-03,5.447e-04:1833:819,1,0:1013,0,0:0|1:40_T_G:40 +MT 43 . C A, . t_lod CONTQ=93;DP=1833;ECNT=4;MBQ=27,27,0;MFRL=532,16148,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-1.710e+00,-2.963e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:1832,1,0:1.069e-03,5.447e-04:1833:819,1,0:1013,0,0:0|1:40_T_G:40 MT 44 . C . . END=50 GT:DP:MIN_DP:TLOD 0/0:1904:1779:-3.311e+00 -MT 51 . T A, . base_quality;t_lod CONTQ=93;DP=2169;ECNT=4;MBQ=28,13,0;MFRL=487,16148,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.610e-04;SAPP=1.363e-04,4.818e-04,0.999;TLOD=-1.853e+00,-3.036e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2168,1,0:9.005e-04,4.604e-04:2169:955,1,0:1213,0,0:0|1:40_T_G:40 +MT 51 . T A, . base_quality;t_lod CONTQ=93;DP=2169;ECNT=4;MBQ=28,13,0;MFRL=487,16148,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-1.853e+00,-3.036e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2168,1,0:9.005e-04,4.604e-04:2169:955,1,0:1213,0,0:0|1:40_T_G:40 MT 52 . T . . END=52 GT:DP:MIN_DP:TLOD 0/0:2432:2432:-2.970e+00 MT 53 . G . . END=53 GT:DP:MIN_DP:TLOD 0/0:2486:2486:-2.052e+00 MT 54 . G . . END=55 GT:DP:MIN_DP:TLOD 0/0:2528:2487:-3.372e+00 @@ -219,37 +217,37 @@ MT 116 . A . . END=116 GT:DP:MIN_DP:TLOD 0/0:5506:5506:-3.342e+00 MT 117 . T . . END=117 GT:DP:MIN_DP:TLOD 0/0:5563:5563:-3.718e+00 MT 118 . G . . END=118 GT:DP:MIN_DP:TLOD 0/0:5524:5524:-3.444e+00 MT 119 . T . . END=119 GT:DP:MIN_DP:TLOD 0/0:5640:5640:-3.692e+00 -MT 120 . C A, . base_quality;t_lod CONTQ=93;DP=5246;ECNT=17;MBQ=25,14,0;MFRL=506,16261,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.881e-04;SAPP=6.554e-05,3.820e-04,1.000;TLOD=-3.412e+00,-3.413e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5151,2,0:1.936e-04,1.932e-04:5153:2469,1,0:2682,1,0 +MT 120 . C A, . base_quality;t_lod CONTQ=93;DP=5246;ECNT=17;MBQ=25,14,0;MFRL=506,16261,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.412e+00,-3.413e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5151,2,0:1.936e-04,1.932e-04:5153:2469,1,0:2682,1,0 MT 121 . G . . END=121 GT:DP:MIN_DP:TLOD 0/0:5147:5147:-3.707e+00 -MT 122 . C A, . base_quality;t_lod CONTQ=93;DP=5324;ECNT=17;MBQ=29,11,0;MFRL=498,16096,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.00,7.647e-04;SAPP=6.420e-05,1.379e-03,0.999;TLOD=-3.419e+00,-3.420e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5227,4,0:1.907e-04,1.901e-04:5231:2508,2,0:2719,2,0 +MT 122 . C A, . base_quality;t_lod CONTQ=93;DP=5324;ECNT=17;MBQ=29,11,0;MFRL=498,16096,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.419e+00,-3.420e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5227,4,0:1.907e-04,1.901e-04:5231:2508,2,0:2719,2,0 MT 123 . A . . END=123 GT:DP:MIN_DP:TLOD 0/0:5268:5268:-3.685e+00 -MT 124 . G T, . base_quality;t_lod CONTQ=93;DP=5406;ECNT=17;MBQ=28,12,0;MFRL=500,411,0;MMQ=60,60,0;MPOS=64,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.883e-04;SAPP=1.955e-04,5.554e-05,1.000;TLOD=-3.424e+00,-3.427e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5310,1,0:1.885e-04,1.870e-04:5311:2550,0,0:2760,1,0 +MT 124 . G T, . base_quality;t_lod CONTQ=93;DP=5406;ECNT=17;MBQ=28,12,0;MFRL=500,411,0;MMQ=60,60,0;MPOS=64,0;POPAF=7.30,7.30;TLOD=-3.424e+00,-3.427e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5310,1,0:1.885e-04,1.870e-04:5311:2550,0,0:2760,1,0 MT 125 . T . . END=130 GT:DP:MIN_DP:TLOD 0/0:5487:5376:-3.739e+00 -MT 131 . T G, . base_quality;t_lod CONTQ=93;DP=5695;ECNT=17;MBQ=28,6,0;MFRL=481,15926,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.251e-03;SAPP=1.098e-04,5.076e-04,0.999;TLOD=-3.426e+00,-3.449e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5588,7,0:1.874e-04,1.777e-04:5595:2654,5,0:2934,2,0 +MT 131 . T G, . base_quality;t_lod CONTQ=93;DP=5695;ECNT=17;MBQ=28,6,0;MFRL=481,15926,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.426e+00,-3.449e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5588,7,0:1.874e-04,1.777e-04:5595:2654,5,0:2934,2,0 MT 132 . C . . END=142 GT:DP:MIN_DP:TLOD 0/0:5872:5676:-3.776e+00 -MT 143 . G A,C, . t_lod CONTQ=93;DP=6192;ECNT=17;MBQ=29,29,2,0;MFRL=456,8242,543,0;MMQ=60,60,60,0;MPOS=37,12,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,9.870e-04;SAPP=1.829e-04,1.642e-04,1.000;TLOD=-2.341e+00,-3.195e+00,-3.309e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6073,6,7,0:6.092e-04,2.090e-04,1.635e-04:6086:2878,2,3,0:3195,4,4,0 +MT 143 . G A,C, . t_lod CONTQ=93;DP=6192;ECNT=17;MBQ=29,29,2,0;MFRL=456,8242,543,0;MMQ=60,60,60,0;MPOS=37,12,0;POPAF=7.30,7.30,7.30;TLOD=-2.341e+00,-3.195e+00,-3.309e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6073,6,7,0:6.092e-04,2.090e-04,1.635e-04:6086:2878,2,3,0:3195,4,4,0 MT 144 . C . . END=150 GT:DP:MIN_DP:TLOD 0/0:6275:6144:-3.763e+00 -MT 151 . C A, . base_quality;t_lod CONTQ=93;DP=6495;ECNT=17;MBQ=28,13,0;MFRL=440,8341,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.260e-04;SAPP=1.238e-04,1.191e-04,1.000;TLOD=-3.505e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,4,0:1.561e-04,1.557e-04:6390:2990,2,0:3396,2,0 -MT 152 . T C,A, . PASS CONTQ=93;DP=6523;ECNT=17;MBQ=29,29,13,0;MFRL=291,438,16046,0;MMQ=60,60,60,0;MPOS=37,23,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.028,0.024,0.948;TLOD=20915.39,-3.329e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:7,6417,8,0:0.999,1.562e-04,1.549e-04:6432:4,3002,2,0:3,3415,6,0 +MT 151 . C A, . base_quality;t_lod CONTQ=93;DP=6495;ECNT=17;MBQ=28,13,0;MFRL=440,8341,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,4,0:1.561e-04,1.557e-04:6390:2990,2,0:3396,2,0 +MT 152 . T C,A, . PASS CONTQ=93;DP=6523;ECNT=17;MBQ=29,29,13,0;MFRL=291,438,16046,0;MMQ=60,60,60,0;MPOS=37,23,0;POPAF=7.30,7.30,7.30;TLOD=20915.39,-3.329e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:7,6417,8,0:0.999,1.562e-04,1.549e-04:6432:4,3002,2,0:3,3415,6,0 MT 153 . A . . END=156 GT:DP:MIN_DP:TLOD 0/0:6486:6477:-3.814e+00 -MT 157 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6625;ECNT=17;MBQ=29,0,0;MFRL=429,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.826e-05,4.803e-05,1.000;TLOD=-3.517e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6546,0,0:1.519e-04,1.519e-04:6546:3057,0,0:3489,0,0:0|1:157_T_A:157 +MT 157 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6625;ECNT=17;MBQ=29,0,0;MFRL=429,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6546,0,0:1.519e-04,1.519e-04:6546:3057,0,0:3489,0,0:0|1:157_T_A:157 MT 158 . T . . END=162 GT:DP:MIN_DP:TLOD 0/0:6523:6483:-3.765e+00 -MT 163 . G GCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6669;ECNT=17;MBQ=25,0,0;MFRL=419,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.745e-05,4.832e-05,1.000;TLOD=-3.520e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6582,0,0:1.510e-04,1.510e-04:6582:3078,0,0:3504,0,0:0|1:157_T_A:157 +MT 163 . G GCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6669;ECNT=17;MBQ=25,0,0;MFRL=419,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6582,0,0:1.510e-04,1.510e-04:6582:3078,0,0:3504,0,0:0|1:157_T_A:157 MT 164 . C . . END=165 GT:DP:MIN_DP:TLOD 0/0:6517:6510:-3.807e+00 -MT 166 . C T, . base_quality;t_lod CONTQ=93;DP=6652;ECNT=17;MBQ=28,12,0;MFRL=410,16006,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.571e-04;SAPP=7.570e-05,1.932e-04,1.000;TLOD=-3.457e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6560,3,0:1.739e-04,1.515e-04:6563:3067,1,0:3493,2,0 -MT 167 . C A, . base_quality;t_lod CONTQ=93;DP=6646;ECNT=17;MBQ=28,13,0;MFRL=410,450,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.390e-03;SAPP=2.332e-04,1.572e-04,1.000;TLOD=-3.471e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6464,9,0:1.690e-04,1.532e-04:6473:3030,3,0:3434,6,0 +MT 166 . C T, . base_quality;t_lod CONTQ=93;DP=6652;ECNT=17;MBQ=28,12,0;MFRL=410,16006,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.457e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6560,3,0:1.739e-04,1.515e-04:6563:3067,1,0:3493,2,0 +MT 167 . C A, . base_quality;t_lod CONTQ=93;DP=6646;ECNT=17;MBQ=28,13,0;MFRL=410,450,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.471e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6464,9,0:1.690e-04,1.532e-04:6473:3030,3,0:3434,6,0 MT 168 . T . . END=169 GT:DP:MIN_DP:TLOD 0/0:6504:6503:-3.809e+00 MT 170 . C . . END=170 GT:DP:MIN_DP:TLOD 0/0:6441:6441:-3.334e+00 -MT 171 . G A, . base_quality;t_lod CONTQ=93;DP=6617;ECNT=17;MBQ=25,12,0;MFRL=404,394,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.769e-04;SAPP=9.761e-05,2.124e-04,1.000;TLOD=-3.501e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6431,5,0:1.579e-04,1.542e-04:6436:2989,3,0:3442,2,0 +MT 171 . G A, . base_quality;t_lod CONTQ=93;DP=6617;ECNT=17;MBQ=25,12,0;MFRL=404,394,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.501e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6431,5,0:1.579e-04,1.542e-04:6436:2989,3,0:3442,2,0 MT 172 . T . . END=174 GT:DP:MIN_DP:TLOD 0/0:6479:6477:-3.781e+00 -MT 175 . A C, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=17;MBQ=29,8,0;MFRL=395,385,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.559e-03;SAPP=6.347e-03,6.172e-05,0.994;TLOD=-3.488e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6405,10,0:1.625e-04,1.544e-04:6415:2980,1,0:3425,9,0 +MT 175 . A C, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=17;MBQ=29,8,0;MFRL=395,385,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.488e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6405,10,0:1.625e-04,1.544e-04:6415:2980,1,0:3425,9,0 MT 176 . A . . END=180 GT:DP:MIN_DP:TLOD 0/0:6463:6457:-3.811e+00 -MT 181 . A C, . base_quality;t_lod CONTQ=93;DP=6564;ECNT=17;MBQ=29,14,0;MFRL=386,375,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.253e-03;SAPP=2.979e-04,1.349e-04,1.000;TLOD=-3.382e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6375,8,0:2.074e-04,1.550e-04:6383:2952,2,0:3423,6,0 +MT 181 . A C, . base_quality;t_lod CONTQ=93;DP=6564;ECNT=17;MBQ=29,14,0;MFRL=386,375,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.382e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6375,8,0:2.074e-04,1.550e-04:6383:2952,2,0:3423,6,0 MT 182 . C . . END=182 GT:DP:MIN_DP:TLOD 0/0:6426:6426:-3.808e+00 -MT 183 . A T, . base_quality;t_lod CONTQ=93;DP=6554;ECNT=17;MBQ=29,13,0;MFRL=383,419,0;MMQ=60,60,0;MPOS=70,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.570e-04;SAPP=1.259e-04,5.312e-05,1.000;TLOD=-3.507e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6368,1,0:1.554e-04,1.553e-04:6369:2948,1,0:3420,0,0 +MT 183 . A T, . base_quality;t_lod CONTQ=93;DP=6554;ECNT=17;MBQ=29,13,0;MFRL=383,419,0;MMQ=60,60,0;MPOS=70,0;POPAF=7.30,7.30;TLOD=-3.507e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6368,1,0:1.554e-04,1.553e-04:6369:2948,1,0:3420,0,0 MT 184 . G . . END=184 GT:DP:MIN_DP:TLOD 0/0:6436:6436:-3.797e+00 -MT 185 . G T,A, . base_quality;t_lod CONTQ=93;DP=6536;ECNT=17;MBQ=28,13,11,0;MFRL=380,314,615,0;MMQ=60,60,60,0;MPOS=17,33,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,4.715e-04;SAPP=1.606e-04,8.936e-05,1.000;TLOD=-3.292e+00,-3.283e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6359,5,3,0:1.701e-04,1.735e-04,1.557e-04:6367:2929,3,0,0:3430,2,3,0 -MT 186 . C T,A, . base_quality;t_lod CONTQ=93;DP=6539;ECNT=17;MBQ=25,13,14,0;MFRL=378,8160,16006,0;MMQ=60,60,60,0;MPOS=20,22,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.285e-04;SAPP=6.522e-05,3.740e-04,1.000;TLOD=-3.233e+00,-3.332e+00,-3.335e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6360,4,1,0:1.921e-04,1.553e-04,1.541e-04:6365:2930,3,0,0:3430,1,1,0 +MT 185 . G T,A, . base_quality;t_lod CONTQ=93;DP=6536;ECNT=17;MBQ=28,13,11,0;MFRL=380,314,615,0;MMQ=60,60,60,0;MPOS=17,33,0;POPAF=7.30,7.30,7.30;TLOD=-3.292e+00,-3.283e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6359,5,3,0:1.701e-04,1.735e-04,1.557e-04:6367:2929,3,0,0:3430,2,3,0 +MT 186 . C T,A, . base_quality;t_lod CONTQ=93;DP=6539;ECNT=17;MBQ=25,13,14,0;MFRL=378,8160,16006,0;MMQ=60,60,60,0;MPOS=20,22,0;POPAF=7.30,7.30,7.30;TLOD=-3.233e+00,-3.332e+00,-3.335e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6360,4,1,0:1.921e-04,1.553e-04,1.541e-04:6365:2930,3,0,0:3430,1,1,0 MT 187 . G . . END=191 GT:DP:MIN_DP:TLOD 0/0:7093:6958:-3.819e+00 MT 192 . T . . END=192 GT:DP:MIN_DP:TLOD 0/0:7092:7092:-3.491e+00 MT 193 . A . . END=194 GT:DP:MIN_DP:TLOD 0/0:7085:7069:-3.727e+00 @@ -263,26 +261,26 @@ MT 216 . T . . END=217 GT:DP:MIN_DP:TLOD 0/0:7114:7111:-3.414e+00 MT 218 . A . . END=218 GT:DP:MIN_DP:TLOD 0/0:7117:7117:-3.575e+00 MT 219 . A . . END=219 GT:DP:MIN_DP:TLOD 0/0:7110:7110:-3.417e+00 MT 220 . T . . END=228 GT:DP:MIN_DP:TLOD 0/0:7109:7046:-3.831e+00 -MT 229 . G A,C,T, . base_quality;t_lod CONTQ=93;DP=4867;ECNT=23;MBQ=28,13,7,13,0;MFRL=343,323,708,403,0;MMQ=60,60,60,60,0;MPOS=8,20,41,0;POPAF=7.30,7.30,7.30,7.30;SAAF=0.00,0.010,1.905e-03;SAPP=0.416,3.171e-05,0.584;TLOD=-3.076e+00,-3.074e+00,-2.794e+00,-3.077e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4:4715,4,8,9,0:2.102e-04,2.111e-04,3.666e-04,2.094e-04:4736:2183,3,2,4,0:2532,1,6,5,0 +MT 229 . G A,C,T, . base_quality;t_lod CONTQ=93;DP=4867;ECNT=23;MBQ=28,13,7,13,0;MFRL=343,323,708,403,0;MMQ=60,60,60,60,0;MPOS=8,20,41,0;POPAF=7.30,7.30,7.30,7.30;TLOD=-3.076e+00,-3.074e+00,-2.794e+00,-3.077e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4:4715,4,8,9,0:2.102e-04,2.111e-04,3.666e-04,2.094e-04:4736:2183,3,2,4,0:2532,1,6,5,0 MT 230 . A . . END=230 GT:DP:MIN_DP:TLOD 0/0:4764:4764:-3.605e+00 -MT 231 . C A, . base_quality;t_lod CONTQ=93;DP=4801;ECNT=23;MBQ=28,7,0;MFRL=342,266,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.538e-04;SAPP=2.971e-04,1.208e-04,1.000;TLOD=-3.210e+00,-3.373e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4681,4,0:2.911e-04,2.116e-04:4685:2149,3,0:2532,1,0 +MT 231 . C A, . base_quality;t_lod CONTQ=93;DP=4801;ECNT=23;MBQ=28,7,0;MFRL=342,266,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.210e+00,-3.373e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4681,4,0:2.911e-04,2.116e-04:4685:2149,3,0:2532,1,0 MT 232 . A . . END=232 GT:DP:MIN_DP:TLOD 0/0:4710:4710:-3.667e+00 MT 233 . T . . END=233 GT:DP:MIN_DP:TLOD 0/0:4661:4661:-3.425e+00 -MT 234 . A C, . base_quality;t_lod CONTQ=93;DP=4721;ECNT=23;MBQ=29,15,0;MFRL=339,382,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.305e-03;SAPP=1.157e-03,9.456e-05,0.999;TLOD=-3.285e+00,-3.366e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4590,6,0:2.596e-04,2.155e-04:4596:2099,2,0:2491,4,0 +MT 234 . A C, . base_quality;t_lod CONTQ=93;DP=4721;ECNT=23;MBQ=29,15,0;MFRL=339,382,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.285e+00,-3.366e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4590,6,0:2.596e-04,2.155e-04:4596:2099,2,0:2491,4,0 MT 235 . A . . END=244 GT:DP:MIN_DP:TLOD 0/0:4496:4359:-3.659e+00 MT 245 . T . . END=245 GT:DP:MIN_DP:TLOD 0/0:4313:4313:-3.430e+00 MT 246 . T . . END=246 GT:DP:MIN_DP:TLOD 0/0:4267:4267:-3.540e+00 -MT 247 . G T, . base_quality;t_lod CONTQ=93;DP=4357;ECNT=23;MBQ=28,12,0;MFRL=329,411,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.658e-03;SAPP=0.179,4.755e-05,0.821;TLOD=-3.325e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4216,7,0:2.364e-04,2.346e-04:4223:1898,3,0:2318,4,0 +MT 247 . G T, . base_quality;t_lod CONTQ=93;DP=4357;ECNT=23;MBQ=28,12,0;MFRL=329,411,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.325e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4216,7,0:2.364e-04,2.346e-04:4223:1898,3,0:2318,4,0 MT 248 . A . . END=248 GT:DP:MIN_DP:TLOD 0/0:4202:4202:-3.612e+00 MT 249 . A . . END=249 GT:DP:MIN_DP:TLOD 0/0:4177:4177:-3.198e+00 -MT 250 . T G, . base_quality;t_lod CONTQ=93;DP=4263;ECNT=23;MBQ=29,7,0;MFRL=328,462,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.413e-03;SAPP=4.759e-04,2.347e-04,0.999;TLOD=-3.316e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4135,10,0:2.418e-04,2.391e-04:4145:1842,4,0:2293,6,0 -MT 251 . G T, . base_quality;t_lod CONTQ=93;DP=4236;ECNT=23;MBQ=28,2,0;MFRL=328,311,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.207e-03;SAPP=3.524e-03,7.597e-05,0.996;TLOD=-3.318e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4138,5,0:2.406e-04,2.393e-04:4143:1839,3,0:2299,2,0:0|1:251_G_T:251 +MT 250 . T G, . base_quality;t_lod CONTQ=93;DP=4263;ECNT=23;MBQ=29,7,0;MFRL=328,462,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.316e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4135,10,0:2.418e-04,2.391e-04:4145:1842,4,0:2293,6,0 +MT 251 . G T, . base_quality;t_lod CONTQ=93;DP=4236;ECNT=23;MBQ=28,2,0;MFRL=328,311,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.318e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4138,5,0:2.406e-04,2.393e-04:4143:1839,3,0:2299,2,0:0|1:251_G_T:251 MT 252 . T . . END=252 GT:DP:MIN_DP:TLOD 0/0:4097:4097:-3.485e+00 -MT 253 . C A, . base_quality;t_lod CONTQ=93;DP=4180;ECNT=23;MBQ=28,12,0;MFRL=325,279,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.852e-04;SAPP=1.533e-03,8.159e-05,0.998;TLOD=-3.302e+00,-3.312e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4056,4,0:2.493e-04,2.438e-04:4060:1795,0,0:2261,4,0 +MT 253 . C A, . base_quality;t_lod CONTQ=93;DP=4180;ECNT=23;MBQ=28,12,0;MFRL=325,279,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.302e+00,-3.312e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4056,4,0:2.493e-04,2.438e-04:4060:1795,0,0:2261,4,0 MT 254 . T . . END=254 GT:DP:MIN_DP:TLOD 0/0:4058:4058:-3.481e+00 MT 255 . G . . END=261 GT:DP:MIN_DP:TLOD 0/0:3906:3829:-3.601e+00 MT 262 . C . . END=262 GT:DP:MIN_DP:TLOD 0/0:3875:3875:-3.494e+00 -MT 263 . A G, . PASS CONTQ=93;DP=3952;ECNT=23;MBQ=14,28,0;MFRL=162,323,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.022,0.033,0.945;TLOD=11637.51,-3.285e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3,3826,0:0.999,2.591e-04:3829:0,1663,0:3,2163,0 +MT 263 . A G, . PASS CONTQ=93;DP=3952;ECNT=23;MBQ=14,28,0;MFRL=162,323,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=11637.51,-3.285e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3,3826,0:0.999,2.591e-04:3829:0,1663,0:3,2163,0 MT 264 . C . . END=264 GT:DP:MIN_DP:TLOD 0/0:3809:3809:-3.581e+00 MT 265 . T . . END=265 GT:DP:MIN_DP:TLOD 0/0:3785:3785:-3.492e+00 MT 266 . T . . END=266 GT:DP:MIN_DP:TLOD 0/0:3756:3756:-3.565e+00 @@ -290,36 +288,36 @@ MT 267 . T . . END=267 GT:DP:MIN_DP:TLOD 0/0:3717:3717:-3.301e+00 MT 268 . C . . END=268 GT:DP:MIN_DP:TLOD 0/0:3732:3732:-3.526e+00 MT 269 . C . . END=269 GT:DP:MIN_DP:TLOD 0/0:3715:3715:-3.031e+00 MT 270 . A . . END=271 GT:DP:MIN_DP:TLOD 0/0:3671:3662:-3.562e+00 -MT 272 . A C, . base_quality;t_lod CONTQ=93;DP=3733;ECNT=23;MBQ=28,8,0;MFRL=322,318,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.350e-03;SAPP=1.517e-04,9.365e-04,0.999;TLOD=-3.252e+00,-3.269e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3699,5,0:2.803e-04,2.694e-04:3704:1573,5,0:2126,0,0:0|1:251_G_T:251 +MT 272 . A C, . base_quality;t_lod CONTQ=93;DP=3733;ECNT=23;MBQ=28,8,0;MFRL=322,318,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.252e+00,-3.269e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3699,5,0:2.803e-04,2.694e-04:3704:1573,5,0:2126,0,0:0|1:251_G_T:251 MT 273 . C . . END=273 GT:DP:MIN_DP:TLOD 0/0:3620:3620:-3.557e+00 MT 274 . A . . END=274 GT:DP:MIN_DP:TLOD 0/0:3589:3589:-3.492e+00 MT 275 . G . . END=275 GT:DP:MIN_DP:TLOD 0/0:3538:3538:-3.526e+00 -MT 276 . A C, . base_quality;t_lod CONTQ=93;DP=3643;ECNT=23;MBQ=28,7,0;MFRL=319,348,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.082e-03;SAPP=3.999e-03,2.415e-04,0.996;TLOD=-3.208e+00,-3.249e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3505,25,0:3.105e-04,2.815e-04:3530:1469,13,0:2036,12,0 +MT 276 . A C, . base_quality;t_lod CONTQ=93;DP=3643;ECNT=23;MBQ=28,7,0;MFRL=319,348,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.208e+00,-3.249e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3505,25,0:3.105e-04,2.815e-04:3530:1469,13,0:2036,12,0 MT 277 . C . . END=279 GT:DP:MIN_DP:TLOD 0/0:3463:3411:-3.528e+00 MT 280 . C . . END=280 GT:DP:MIN_DP:TLOD 0/0:3416:3416:-3.256e+00 MT 281 . A . . END=281 GT:DP:MIN_DP:TLOD 0/0:3396:3396:-3.534e+00 MT 282 . T . . END=283 GT:DP:MIN_DP:TLOD 0/0:3356:3352:-3.496e+00 MT 284 . A . . END=284 GT:DP:MIN_DP:TLOD 0/0:3328:3328:-3.517e+00 MT 285 . C . . END=291 GT:DP:MIN_DP:TLOD 0/0:3252:3152:-3.497e+00 -MT 292 . T A, . base_quality;t_lod CONTQ=93;DP=3434;ECNT=23;MBQ=28,12,0;MFRL=318,269,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.153e-03;SAPP=0.622,2.623e-05,0.378;TLOD=-3.214e+00,-3.218e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3245,7,0:3.055e-04,3.028e-04:3252:1294,4,0:1951,3,0 -MT 293 . T A, . base_quality;t_lod CONTQ=93;DP=3426;ECNT=23;MBQ=28,12,0;MFRL=317,394,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.450e-03;SAPP=0.915,5.722e-06,0.085;TLOD=-3.213e+00,-3.218e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3257,8,0:3.061e-04,3.026e-04:3265:1280,2,0:1977,6,0 +MT 292 . T A, . base_quality;t_lod CONTQ=93;DP=3434;ECNT=23;MBQ=28,12,0;MFRL=318,269,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.214e+00,-3.218e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3245,7,0:3.055e-04,3.028e-04:3252:1294,4,0:1951,3,0 +MT 293 . T A, . base_quality;t_lod CONTQ=93;DP=3426;ECNT=23;MBQ=28,12,0;MFRL=317,394,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.213e+00,-3.218e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3257,8,0:3.061e-04,3.026e-04:3265:1280,2,0:1977,6,0 MT 294 . T . . END=294 GT:DP:MIN_DP:TLOD 0/0:3056:3056:-3.475e+00 -MT 295 . C A, . base_quality;t_lod CONTQ=93;DP=3399;ECNT=23;MBQ=28,11,0;MFRL=317,319,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.809e-03;SAPP=0.958,2.393e-06,0.042;TLOD=-3.218e+00,-3.223e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3311,6,0:3.026e-04,2.990e-04:3317:1281,4,0:2030,2,0 -MT 296 . C A, . base_quality;t_lod CONTQ=93;DP=3398;ECNT=23;MBQ=28,2,0;MFRL=317,539,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.183e-04;SAPP=0.086,5.219e-05,0.914;TLOD=-3.217e+00,-3.219e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3264,3,0:3.032e-04,3.020e-04:3267:1263,2,0:2001,1,0 -MT 297 . A C,T, . base_quality;t_lod CONTQ=93;DP=3378;ECNT=23;MBQ=27,7,12,0;MFRL=317,341,285,0;MMQ=60,60,60,0;MPOS=10,46,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=9.976e-04,1.344e-03,0.998;TLOD=-2.914e+00,-3.041e+00,-3.042e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3177,46,2,0:4.144e-04,3.032e-04,3.029e-04:3225:1223,20,1,0:1954,26,1,0 +MT 295 . C A, . base_quality;t_lod CONTQ=93;DP=3399;ECNT=23;MBQ=28,11,0;MFRL=317,319,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.218e+00,-3.223e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3311,6,0:3.026e-04,2.990e-04:3317:1281,4,0:2030,2,0 +MT 296 . C A, . base_quality;t_lod CONTQ=93;DP=3398;ECNT=23;MBQ=28,2,0;MFRL=317,539,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.217e+00,-3.219e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3264,3,0:3.032e-04,3.020e-04:3267:1263,2,0:2001,1,0 +MT 297 . A C,T, . base_quality;t_lod CONTQ=93;DP=3378;ECNT=23;MBQ=27,7,12,0;MFRL=317,341,285,0;MMQ=60,60,60,0;MPOS=10,46,0;POPAF=7.30,7.30,7.30;TLOD=-2.914e+00,-3.041e+00,-3.042e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3177,46,2,0:4.144e-04,3.032e-04,3.029e-04:3225:1223,20,1,0:1954,26,1,0 MT 298 . C . . END=298 GT:DP:MIN_DP:TLOD 0/0:3131:3131:-3.489e+00 -MT 299 . C CA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=3349;ECNT=23;MBQ=27,0,0;MFRL=317,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.265e-04,5.766e-05,1.000;TLOD=-3.204e+00,-3.204e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3095,0,0:3.130e-04,3.130e-04:3095:1164,0,0:1931,0,0 +MT 299 . C CA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=3349;ECNT=23;MBQ=27,0,0;MFRL=317,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.204e+00,-3.204e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3095,0,0:3.130e-04,3.130e-04:3095:1164,0,0:1931,0,0 MT 300 . A . . END=300 GT:DP:MIN_DP:TLOD 0/0:3042:3042:-2.739e+00 -MT 301 . A AAC,AC,ACC,AACC, . base_quality;strand_artifact CONTQ=93;DP=3306;ECNT=23;MBQ=24,30,14,14,0,0;MFRL=314,338,331,348,0,0;MMQ=60,60,60,60,0,0;MPOS=17,29,31,0,0;POPAF=7.30,7.30,7.30,7.30,7.30;SAAF=0.121,0.00,0.126;SAPP=2.974e-15,1.000,4.672e-12;TLOD=0.752,40.44,-2.652e+00,-2.802e+00,-2.810e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:2505,44,360,24,0,0:2.340e-03,0.045,4.575e-04,3.158e-04,3.099e-04:2933:910,27,141,5,0,0:1595,17,219,19,0,0 -MT 302 . A AC,C,ACC,AAC,ACCC,AACC,ACCAC, . base_quality CONTQ=93;DP=3278;ECNT=23;MBQ=12,15,29,15,0,28,0,31,0;MFRL=328,315,331,303,0,304,0,292,0;MMQ=60,60,60,60,0,60,0,60,0;MPOS=38,30,30,0,13,0,7,0;POPAF=7.30,7.30,7.30,7.30,7.30,7.30,7.30,7.30;SAAF=0.970,0.374,0.967;SAPP=0.00,1.00,0.00;TLOD=3307.49,84.49,64.62,-2.580e+00,4.97,-2.577e+00,-2.561e+00,-2.585e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5/6/7/8:67,1957,391,107,0,29,0,2,0:0.862,0.076,0.041,3.296e-04,6.224e-03,3.317e-04,3.454e-04,3.255e-04:2553:40,660,147,39,0,13,0,2,0:27,1297,244,68,0,16,0,0,0 -MT 303 . C CCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=3320;ECNT=23;MBQ=29,0,0;MFRL=317,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.669e-04,5.703e-05,0.999;TLOD=-3.202e+00,-3.202e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3093,0,0:3.138e-04,3.138e-04:3093:1156,0,0:1937,0,0 +MT 301 . A AAC,AC,ACC,AACC, . base_quality;strand_artifact CONTQ=93;DP=3306;ECNT=23;MBQ=24,30,14,14,0,0;MFRL=314,338,331,348,0,0;MMQ=60,60,60,60,0,0;MPOS=17,29,31,0,0;POPAF=7.30,7.30,7.30,7.30,7.30;TLOD=0.752,40.44,-2.652e+00,-2.802e+00,-2.810e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:2505,44,360,24,0,0:2.340e-03,0.045,4.575e-04,3.158e-04,3.099e-04:2933:910,27,141,5,0,0:1595,17,219,19,0,0 +MT 302 . A AC,C,ACC,AAC,ACCC,AACC,ACCAC, . base_quality CONTQ=93;DP=3278;ECNT=23;MBQ=12,15,29,15,0,28,0,31,0;MFRL=328,315,331,303,0,304,0,292,0;MMQ=60,60,60,60,0,60,0,60,0;MPOS=38,30,30,0,13,0,7,0;POPAF=7.30,7.30,7.30,7.30,7.30,7.30,7.30,7.30;TLOD=3307.49,84.49,64.62,-2.580e+00,4.97,-2.577e+00,-2.561e+00,-2.585e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5/6/7/8:67,1957,391,107,0,29,0,2,0:0.862,0.076,0.041,3.296e-04,6.224e-03,3.317e-04,3.454e-04,3.255e-04:2553:40,660,147,39,0,13,0,2,0:27,1297,244,68,0,16,0,0,0 +MT 303 . C CCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=3320;ECNT=23;MBQ=29,0,0;MFRL=317,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.202e+00,-3.202e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3093,0,0:3.138e-04,3.138e-04:3093:1156,0,0:1937,0,0 MT 304 . C . . END=308 GT:DP:MIN_DP:TLOD 0/0:3013:2999:-3.481e+00 -MT 309 . C CA,CCA, . base_quality;mapping_quality;t_lod CONTQ=93;DP=3331;ECNT=23;MBQ=27,0,17,0;MFRL=317,0,325,0;MMQ=60,0,60,0;MPOS=0,7,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.256e-03;SAPP=0.375,1.030e-04,0.625;TLOD=-3.031e+00,-3.003e+00,-3.031e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3018,0,19,0:3.102e-04,3.324e-04,3.105e-04:3037:1076,0,9,0:1942,0,10,0 -MT 310 . T C,TC, . PASS CONTQ=93;DP=3322;ECNT=23;MBQ=5,23,25,0;MFRL=310,318,317,0;MMQ=60,60,60,0;MPOS=3,31,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,1.000;SAPP=0.022,0.035,0.943;TLOD=5.52,7391.53,-3.031e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1,109,2897,0:7.771e-03,0.992,3.102e-04:3007:1,61,1012,0:0,48,1885,0 +MT 309 . C CA,CCA, . base_quality;mapping_quality;t_lod CONTQ=93;DP=3331;ECNT=23;MBQ=27,0,17,0;MFRL=317,0,325,0;MMQ=60,0,60,0;MPOS=0,7,0;POPAF=7.30,7.30,7.30;TLOD=-3.031e+00,-3.003e+00,-3.031e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3018,0,19,0:3.102e-04,3.324e-04,3.105e-04:3037:1076,0,9,0:1942,0,10,0 +MT 310 . T C,TC, . PASS CONTQ=93;DP=3322;ECNT=23;MBQ=5,23,25,0;MFRL=310,318,317,0;MMQ=60,60,60,0;MPOS=3,31,0;POPAF=7.30,7.30,7.30;TLOD=5.52,7391.53,-3.031e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1,109,2897,0:7.771e-03,0.992,3.102e-04:3007:1,61,1012,0:0,48,1885,0 MT 311 . C . . END=315 GT:DP:MIN_DP:TLOD 0/0:3059:2993:-3.494e+00 -MT 316 . G C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3351;ECNT=23;MBQ=28,4,0;MFRL=316,326,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.031e-03;SAPP=1.00,0.00,0.00;TLOD=-1.276e-01,-3.220e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3292,30,0:1.783e-03,3.014e-04:3322:1166,18,0:2126,12,0:0|1:316_G_C:316 +MT 316 . G C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3351;ECNT=23;MBQ=28,4,0;MFRL=316,326,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-1.276e-01,-3.220e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3292,30,0:1.783e-03,3.014e-04:3322:1166,18,0:2126,12,0:0|1:316_G_C:316 MT 317 . C . . END=317 GT:DP:MIN_DP:TLOD 0/0:3123:3123:-3.497e+00 -MT 318 . T C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3342;ECNT=23;MBQ=29,2,0;MFRL=317,311,0;MMQ=60,60,0;MPOS=1,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.544e-03;SAPP=1.00,0.00,0.00;TLOD=-4.737e-02,-3.214e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3217,31,0:1.871e-03,3.055e-04:3248:1129,18,0:2088,13,0:0|1:316_G_C:316 +MT 318 . T C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3342;ECNT=23;MBQ=29,2,0;MFRL=317,311,0;MMQ=60,60,0;MPOS=1,0;POPAF=7.30,7.30;TLOD=-4.737e-02,-3.214e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3217,31,0:1.871e-03,3.055e-04:3248:1129,18,0:2088,13,0:0|1:316_G_C:316 MT 319 . T . . END=319 GT:DP:MIN_DP:TLOD 0/0:4153:4153:-3.555e+00 MT 320 . C . . END=320 GT:DP:MIN_DP:TLOD 0/0:4190:4190:-3.394e+00 MT 321 . T . . END=323 GT:DP:MIN_DP:TLOD 0/0:4215:4132:-3.587e+00 @@ -407,25 +405,25 @@ MT 458 . C . . END=458 GT:DP:MIN_DP:TLOD 0/0:6581:6581:-3.490e+00 MT 459 . C . . END=459 GT:DP:MIN_DP:TLOD 0/0:6660:6660:-3.676e+00 MT 460 . T . . END=460 GT:DP:MIN_DP:TLOD 0/0:6449:6449:-2.015e+00 MT 461 . C . . END=463 GT:DP:MIN_DP:TLOD 0/0:6535:6458:-3.810e+00 -MT 464 . A C, . base_quality;t_lod CONTQ=93;DP=3798;ECNT=12;MBQ=26,5,0;MFRL=318,329,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.030,0.020,0.033;SAPP=4.242e-04,0.028,0.972;TLOD=-2.148e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3497,121,0:1.510e-03,2.792e-04:3618:1224,61,0:2273,60,0 +MT 464 . A C, . base_quality;t_lod CONTQ=93;DP=3798;ECNT=12;MBQ=26,5,0;MFRL=318,329,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-2.148e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3497,121,0:1.510e-03,2.792e-04:3618:1224,61,0:2273,60,0 MT 465 . C . . END=465 GT:DP:MIN_DP:TLOD 0/0:3682:3682:-3.568e+00 MT 466 . T . . END=466 GT:DP:MIN_DP:TLOD 0/0:3661:3661:-3.485e+00 MT 467 . C . . END=469 GT:DP:MIN_DP:TLOD 0/0:3714:3705:-3.571e+00 -MT 470 . A C, . base_quality;t_lod CONTQ=93;DP=3824;ECNT=12;MBQ=28,7,0;MFRL=319,306,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=0.926,1.070e-05,0.074;TLOD=-3.202e+00,-3.267e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3631,52,0:3.160e-04,2.702e-04:3683:1296,37,0:2335,15,0 +MT 470 . A C, . base_quality;t_lod CONTQ=93;DP=3824;ECNT=12;MBQ=28,7,0;MFRL=319,306,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.202e+00,-3.267e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3631,52,0:3.160e-04,2.702e-04:3683:1296,37,0:2335,15,0 MT 471 . T . . END=473 GT:DP:MIN_DP:TLOD 0/0:3683:3683:-3.570e+00 -MT 474 . T G, . base_quality;t_lod CONTQ=93;DP=3837;ECNT=12;MBQ=29,7,0;MFRL=320,283,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.614e-03;SAPP=2.111e-04,4.600e-04,0.999;TLOD=-3.239e+00,-3.274e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3712,6,0:2.885e-04,2.663e-04:3718:1342,2,0:2370,4,0 +MT 474 . T G, . base_quality;t_lod CONTQ=93;DP=3837;ECNT=12;MBQ=29,7,0;MFRL=320,283,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.239e+00,-3.274e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3712,6,0:2.885e-04,2.663e-04:3718:1342,2,0:2370,4,0 MT 475 . A . . END=475 GT:DP:MIN_DP:TLOD 0/0:3722:3722:-3.430e+00 MT 476 . C . . END=478 GT:DP:MIN_DP:TLOD 0/0:3753:3752:-3.578e+00 -MT 479 . A C, . base_quality;t_lod CONTQ=93;DP=3918;ECNT=12;MBQ=28,6,0;MFRL=322,413,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.895e-03;SAPP=0.109,8.540e-05,0.891;TLOD=-3.168e+00,-3.286e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3836,15,0:3.341e-04,2.588e-04:3851:1405,6,0:2431,9,0:0|1:479_A_C:479 +MT 479 . A C, . base_quality;t_lod CONTQ=93;DP=3918;ECNT=12;MBQ=28,6,0;MFRL=322,413,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.168e+00,-3.286e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3836,15,0:3.341e-04,2.588e-04:3851:1405,6,0:2431,9,0:0|1:479_A_C:479 MT 480 . T . . END=481 GT:DP:MIN_DP:TLOD 0/0:3768:3748:-3.579e+00 MT 482 . T . . END=482 GT:DP:MIN_DP:TLOD 0/0:3793:3793:-3.312e+00 MT 483 . C . . END=483 GT:DP:MIN_DP:TLOD 0/0:3811:3811:-3.584e+00 -MT 484 . A C, . base_quality;t_lod CONTQ=93;DP=3975;ECNT=12;MBQ=28,7,0;MFRL=322,345,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.580e-03;SAPP=9.660e-03,1.979e-04,0.990;TLOD=-2.882e+00,-3.287e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3813,33,0:5.731e-04,2.585e-04:3846:1398,10,0:2415,23,0 +MT 484 . A C, . base_quality;t_lod CONTQ=93;DP=3975;ECNT=12;MBQ=28,7,0;MFRL=322,345,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-2.882e+00,-3.287e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3813,33,0:5.731e-04,2.585e-04:3846:1398,10,0:2415,23,0 MT 485 . T . . END=485 GT:DP:MIN_DP:TLOD 0/0:3804:3804:-3.579e+00 MT 486 . C . . END=489 GT:DP:MIN_DP:TLOD 0/0:3834:3830:-3.457e+00 MT 490 . A . . END=491 GT:DP:MIN_DP:TLOD 0/0:3836:3835:-3.588e+00 MT 492 . A . . END=492 GT:DP:MIN_DP:TLOD 0/0:3857:3857:-3.346e+00 -MT 493 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=4045;ECNT=12;MBQ=27,5,0;MFRL=324,307,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.040,0.00,0.043;SAPP=0.00,1.00,0.00;TLOD=1.48,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3735,166,0:4.465e-03,2.620e-04:3901:1374,66,0:2361,100,0 +MT 493 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=4045;ECNT=12;MBQ=27,5,0;MFRL=324,307,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=1.48,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3735,166,0:4.465e-03,2.620e-04:3901:1374,66,0:2361,100,0 MT 494 . C . . END=496 GT:DP:MIN_DP:TLOD 0/0:3922:3896:-3.584e+00 MT 497 . C . . END=498 GT:DP:MIN_DP:TLOD 0/0:3930:3926:-3.187e+00 MT 499 . G . . END=499 GT:DP:MIN_DP:TLOD 0/0:3760:3760:-2.340e+00 @@ -438,11 +436,11 @@ MT 508 . A . . END=508 GT:DP:MIN_DP:TLOD 0/0:4019:4019:-3.337e+00 MT 509 . C . . END=510 GT:DP:MIN_DP:TLOD 0/0:4099:4077:-3.614e+00 MT 511 . C . . END=512 GT:DP:MIN_DP:TLOD 0/0:4120:4100:-3.373e+00 MT 513 . G . . END=516 GT:DP:MIN_DP:TLOD 0/0:4150:4077:-3.625e+00 -MT 517 . A T, . base_quality;t_lod CONTQ=93;DP=4355;ECNT=12;MBQ=28,19,0;MFRL=328,380,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.756e-04;SAPP=7.436e-04,6.634e-05,0.999;TLOD=-3.300e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4203,2,0:2.509e-04,2.350e-04:4205:1582,1,0:2621,1,0 +MT 517 . A T, . base_quality;t_lod CONTQ=93;DP=4355;ECNT=12;MBQ=28,19,0;MFRL=328,380,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.300e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4203,2,0:2.509e-04,2.350e-04:4205:1582,1,0:2621,1,0 MT 518 . C . . END=519 GT:DP:MIN_DP:TLOD 0/0:4223:4220:-3.627e+00 MT 520 . C . . END=520 GT:DP:MIN_DP:TLOD 0/0:4257:4257:-3.354e+00 MT 521 . A . . END=524 GT:DP:MIN_DP:TLOD 0/0:4298:4245:-3.642e+00 -MT 525 . C A, . base_quality;t_lod CONTQ=93;DP=4528;ECNT=12;MBQ=25,11,0;MFRL=328,349,0;MMQ=60,60,0;MPOS=68,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.749e-04;SAPP=7.964e-05,7.382e-04,0.999;TLOD=-3.344e+00,-3.350e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4442,3,0:2.266e-04,2.235e-04:4445:1665,1,0:2777,2,0:0|1:479_A_C:479 +MT 525 . C A, . base_quality;t_lod CONTQ=93;DP=4528;ECNT=12;MBQ=25,11,0;MFRL=328,349,0;MMQ=60,60,0;MPOS=68,0;POPAF=7.30,7.30;TLOD=-3.344e+00,-3.350e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4442,3,0:2.266e-04,2.235e-04:4445:1665,1,0:2777,2,0:0|1:479_A_C:479 MT 526 . G . . END=527 GT:DP:MIN_DP:TLOD 0/0:4372:4325:-3.645e+00 MT 528 . T . . END=529 GT:DP:MIN_DP:TLOD 0/0:4439:4429:-3.481e+00 MT 530 . C . . END=535 GT:DP:MIN_DP:TLOD 0/0:4547:4467:-3.646e+00 @@ -451,15 +449,15 @@ MT 537 . C . . END=544 GT:DP:MIN_DP:TLOD 0/0:4690:4651:-3.680e+00 MT 545 . G . . END=545 GT:DP:MIN_DP:TLOD 0/0:4473:4473:-3.204e+00 MT 546 . A . . END=549 GT:DP:MIN_DP:TLOD 0/0:4843:4809:-3.687e+00 MT 550 . A . . END=550 GT:DP:MIN_DP:TLOD 0/0:4909:4909:-3.456e+00 -MT 551 . A C,T, . base_quality;t_lod CONTQ=93;DP=5004;ECNT=12;MBQ=28,7,12,0;MFRL=329,315,396,0;MMQ=60,60,60,0;MPOS=38,22,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.351e-03;SAPP=8.424e-05,0.191,0.809;TLOD=-2.763e+00,-3.112e+00,-3.213e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4850,31,4,0:5.282e-04,2.534e-04,2.040e-04:4885:1886,9,1,0:2964,22,3,0 +MT 551 . A C,T, . base_quality;t_lod CONTQ=93;DP=5004;ECNT=12;MBQ=28,7,12,0;MFRL=329,315,396,0;MMQ=60,60,60,0;MPOS=38,22,0;POPAF=7.30,7.30,7.30;TLOD=-2.763e+00,-3.112e+00,-3.213e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4850,31,4,0:5.282e-04,2.534e-04,2.040e-04:4885:1886,9,1,0:2964,22,3,0 MT 552 . C . . END=552 GT:DP:MIN_DP:TLOD 0/0:4929:4929:-3.680e+00 MT 553 . C . . END=553 GT:DP:MIN_DP:TLOD 0/0:4985:4985:-3.348e+00 MT 554 . A . . END=555 GT:DP:MIN_DP:TLOD 0/0:5001:4995:-3.632e+00 -MT 556 . A C, . base_quality;t_lod CONTQ=93;DP=5088;ECNT=12;MBQ=28,5,0;MFRL=329,364,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.875e-03;SAPP=6.985e-10,1.000,9.263e-06;TLOD=-3.363e+00,-3.395e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4913,49,0:2.171e-04,2.015e-04:4962:1933,7,0:2980,42,0 +MT 556 . A C, . base_quality;t_lod CONTQ=93;DP=5088;ECNT=12;MBQ=28,5,0;MFRL=329,364,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.363e+00,-3.395e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4913,49,0:2.171e-04,2.015e-04:4962:1933,7,0:2980,42,0 MT 557 . C . . END=558 GT:DP:MIN_DP:TLOD 0/0:5028:4987:-3.705e+00 -MT 559 . C A, . t_lod CONTQ=93;DP=5142;ECNT=12;MBQ=28,26,0;MFRL=329,506,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.957e-04;SAPP=5.636e-05,2.141e-04,1.000;TLOD=-2.572e+00,-3.409e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5108,1,0:3.708e-04,1.951e-04:5109:2016,0,0:3092,1,0 +MT 559 . C A, . t_lod CONTQ=93;DP=5142;ECNT=12;MBQ=28,26,0;MFRL=329,506,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-2.572e+00,-3.409e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5108,1,0:3.708e-04,1.951e-04:5109:2016,0,0:3092,1,0 MT 560 . C . . END=561 GT:DP:MIN_DP:TLOD 0/0:5104:5093:-3.687e+00 -MT 562 . A C, . base_quality;t_lod CONTQ=93;DP=5211;ECNT=12;MBQ=28,5,0;MFRL=330,279,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.126e-03;SAPP=4.140e-04,3.372e-04,0.999;TLOD=-3.284e+00,-3.408e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5069,21,0:2.599e-04,1.955e-04:5090:2014,7,0:3055,14,0 +MT 562 . A C, . base_quality;t_lod CONTQ=93;DP=5211;ECNT=12;MBQ=28,5,0;MFRL=330,279,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.284e+00,-3.408e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5069,21,0:2.599e-04,1.955e-04:5090:2014,7,0:3055,14,0 MT 563 . A . . END=563 GT:DP:MIN_DP:TLOD 0/0:6529:6529:-3.673e+00 MT 564 . G . . END=564 GT:DP:MIN_DP:TLOD 0/0:6410:6410:-5.716e-01 MT 565 . A . . END=566 GT:DP:MIN_DP:TLOD 0/0:6475:6428:-3.687e+00 @@ -531,31 +529,31 @@ MT 698 . C . . END=710 GT:DP:MIN_DP:TLOD 0/0:7083:6898:-3.826e+00 MT 711 . T . . END=711 GT:DP:MIN_DP:TLOD 0/0:7103:7103:-3.415e+00 MT 712 . C . . END=714 GT:DP:MIN_DP:TLOD 0/0:7109:7101:-3.782e+00 MT 715 . G . . END=715 GT:DP:MIN_DP:TLOD 0/0:7040:7040:-3.463e+00 -MT 716 . T G, . base_quality;t_lod CONTQ=93;DP=6605;ECNT=15;MBQ=29,9,0;MFRL=338,350,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.021e-03;SAPP=3.864e-04,1.475e-04,0.999;TLOD=-3.489e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,13,0:1.623e-04,1.542e-04:6432:2951,5,0:3468,8,0 +MT 716 . T G, . base_quality;t_lod CONTQ=93;DP=6605;ECNT=15;MBQ=29,9,0;MFRL=338,350,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.489e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,13,0:1.623e-04,1.542e-04:6432:2951,5,0:3468,8,0 MT 717 . G . . END=721 GT:DP:MIN_DP:TLOD 0/0:6496:6458:-3.807e+00 -MT 722 . C A, . t_lod CONTQ=93;DP=6630;ECNT=15;MBQ=28,20,0;MFRL=339,441,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.640e-04;SAPP=7.433e-05,2.055e-04,1.000;TLOD=-3.483e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,3,0:1.648e-04,1.533e-04:6465:2973,1,0:3489,2,0 +MT 722 . C A, . t_lod CONTQ=93;DP=6630;ECNT=15;MBQ=28,20,0;MFRL=339,441,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.483e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,3,0:1.648e-04,1.533e-04:6465:2973,1,0:3489,2,0 MT 723 . A . . END=725 GT:DP:MIN_DP:TLOD 0/0:6535:6517:-3.801e+00 -MT 726 . C A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=15;MBQ=29,14,0;MFRL=339,290,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.079e-03;SAPP=8.294e-05,6.565e-04,0.999;TLOD=-3.224e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6480,7,0:2.802e-04,1.527e-04:6487:2983,4,0:3497,3,0 +MT 726 . C A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=15;MBQ=29,14,0;MFRL=339,290,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.224e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6480,7,0:2.802e-04,1.527e-04:6487:2983,4,0:3497,3,0 MT 727 . T . . END=735 GT:DP:MIN_DP:TLOD 0/0:6565:6525:-3.791e+00 -MT 736 . C T, . t_lod CONTQ=93;DP=6727;ECNT=15;MBQ=28,21,0;MFRL=340,248,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.049e-04;SAPP=3.235e-04,5.091e-05,1.000;TLOD=-3.427e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6558,2,0:1.844e-04,1.510e-04:6560:3063,1,0:3495,1,0 -MT 737 . C A, . base_quality;t_lod CONTQ=93;DP=6737;ECNT=15;MBQ=29,12,0;MFRL=340,329,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.523e-03;SAPP=1.489e-03,7.515e-05,0.998;TLOD=-3.517e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6554,10,0:1.520e-04,1.510e-04:6564:3066,2,0:3488,8,0 -MT 738 . A T, . base_quality;t_lod CONTQ=93;DP=6749;ECNT=15;MBQ=29,12,0;MFRL=339,429,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.567e-04;SAPP=7.325e-05,2.040e-04,1.000;TLOD=-3.520e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6566,3,0:1.510e-04,1.507e-04:6569:3061,1,0:3505,2,0 +MT 736 . C T, . t_lod CONTQ=93;DP=6727;ECNT=15;MBQ=28,21,0;MFRL=340,248,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.427e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6558,2,0:1.844e-04,1.510e-04:6560:3063,1,0:3495,1,0 +MT 737 . C A, . base_quality;t_lod CONTQ=93;DP=6737;ECNT=15;MBQ=29,12,0;MFRL=340,329,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6554,10,0:1.520e-04,1.510e-04:6564:3066,2,0:3488,8,0 +MT 738 . A T, . base_quality;t_lod CONTQ=93;DP=6749;ECNT=15;MBQ=29,12,0;MFRL=339,429,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6566,3,0:1.510e-04,1.507e-04:6569:3061,1,0:3505,2,0 MT 739 . C . . END=742 GT:DP:MIN_DP:TLOD 0/0:6602:6578:-3.816e+00 -MT 743 . C A, . base_quality;t_lod CONTQ=93;DP=6784;ECNT=15;MBQ=28,10,0;MFRL=338,500,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.555e-04;SAPP=1.624e-04,1.111e-04,1.000;TLOD=-3.522e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6613,5,0:1.503e-04,1.498e-04:6618:3064,3,0:3549,2,0 +MT 743 . C A, . base_quality;t_lod CONTQ=93;DP=6784;ECNT=15;MBQ=28,10,0;MFRL=338,500,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.522e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6613,5,0:1.503e-04,1.498e-04:6618:3064,3,0:3549,2,0 MT 744 . A . . END=744 GT:DP:MIN_DP:TLOD 0/0:6662:6662:-3.800e+00 -MT 745 . A C, . base_quality;t_lod CONTQ=93;DP=6809;ECNT=15;MBQ=29,7,0;MFRL=339,357,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.266e-03;SAPP=2.537e-04,2.501e-04,0.999;TLOD=-3.497e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6605,15,0:1.593e-04,1.497e-04:6620:3063,7,0:3542,8,0 +MT 745 . A C, . base_quality;t_lod CONTQ=93;DP=6809;ECNT=15;MBQ=29,7,0;MFRL=339,357,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6605,15,0:1.593e-04,1.497e-04:6620:3063,7,0:3542,8,0 MT 746 . A . . END=748 GT:DP:MIN_DP:TLOD 0/0:6653:6643:-3.818e+00 -MT 749 . G T, . base_quality;t_lod CONTQ=93;DP=6803;ECNT=15;MBQ=28,13,0;MFRL=340,312,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.206e-03;SAPP=6.842e-04,8.709e-05,0.999;TLOD=-3.522e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6624,8,0:1.505e-04,1.496e-04:6632:3082,4,0:3542,4,0 -MT 750 . A G, . PASS CONTQ=93;DP=6813;ECNT=15;MBQ=12,28,0;MFRL=368,339,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.028,0.025,0.947;TLOD=20901.35,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:8,6621,0:1.000,1.496e-04:6629:4,3083,0:4,3538,0 +MT 749 . G T, . base_quality;t_lod CONTQ=93;DP=6803;ECNT=15;MBQ=28,13,0;MFRL=340,312,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.522e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6624,8,0:1.505e-04,1.496e-04:6632:3082,4,0:3542,4,0 +MT 750 . A G, . PASS CONTQ=93;DP=6813;ECNT=15;MBQ=12,28,0;MFRL=368,339,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20901.35,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:8,6621,0:1.000,1.496e-04:6629:4,3083,0:4,3538,0 MT 751 . A . . END=759 GT:DP:MIN_DP:TLOD 0/0:6678:6645:-3.822e+00 -MT 760 . A C, . base_quality;t_lod CONTQ=93;DP=6823;ECNT=15;MBQ=29,15,0;MFRL=339,383,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.939e-04;SAPP=2.428e-04,7.289e-05,1.000;TLOD=-3.486e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6731,4,0:1.632e-04,1.476e-04:6735:3125,0,0:3606,4,0 +MT 760 . A C, . base_quality;t_lod CONTQ=93;DP=6823;ECNT=15;MBQ=29,15,0;MFRL=339,383,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.486e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6731,4,0:1.632e-04,1.476e-04:6735:3125,0,0:3606,4,0 MT 761 . A . . END=767 GT:DP:MIN_DP:TLOD 0/0:6652:6603:-3.816e+00 -MT 768 . A AGCAAT, . t_lod CONTQ=93;DP=6805;ECNT=15;MBQ=29,25,0;MFRL=339,383,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.977e-04;SAPP=9.315e-05,1.161e-04,1.000;TLOD=-3.486e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6717,2,0:1.633e-04,1.480e-04:6719:3134,0,0:3583,2,0 +MT 768 . A AGCAAT, . t_lod CONTQ=93;DP=6805;ECNT=15;MBQ=29,25,0;MFRL=339,383,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;TLOD=-3.486e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6717,2,0:1.633e-04,1.480e-04:6719:3134,0,0:3583,2,0 MT 769 . G . . END=771 GT:DP:MIN_DP:TLOD 0/0:6646:6635:-3.799e+00 -MT 772 . A C, . base_quality;t_lod CONTQ=93;DP=6791;ECNT=15;MBQ=29,7,0;MFRL=339,419,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.025e-03;SAPP=1.404e-03,1.110e-04,0.998;TLOD=-3.467e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6591,20,0:1.714e-04,1.500e-04:6611:3059,9,0:3532,11,0 +MT 772 . A C, . base_quality;t_lod CONTQ=93;DP=6791;ECNT=15;MBQ=29,7,0;MFRL=339,419,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.467e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6591,20,0:1.714e-04,1.500e-04:6611:3059,9,0:3532,11,0 MT 773 . T . . END=782 GT:DP:MIN_DP:TLOD 0/0:6631:6584:-3.818e+00 -MT 783 . A G, . base_quality;t_lod CONTQ=93;DP=6751;ECNT=15;MBQ=29,15,0;MFRL=339,499,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.624e-04;SAPP=6.146e-05,6.440e-04,0.999;TLOD=-3.364e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6553,5,0:2.132e-04,1.509e-04:6558:3019,1,0:3534,4,0 -MT 784 . A T, . base_quality;t_lod CONTQ=93;DP=6744;ECNT=15;MBQ=28,14,0;MFRL=338,359,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.584e-04;SAPP=7.199e-05,2.121e-04,1.000;TLOD=-3.461e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6541,3,0:1.724e-04,1.512e-04:6544:3009,3,0:3532,0,0 +MT 783 . A G, . base_quality;t_lod CONTQ=93;DP=6751;ECNT=15;MBQ=29,15,0;MFRL=339,499,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.364e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6553,5,0:2.132e-04,1.509e-04:6558:3019,1,0:3534,4,0 +MT 784 . A T, . base_quality;t_lod CONTQ=93;DP=6744;ECNT=15;MBQ=28,14,0;MFRL=338,359,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.461e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6541,3,0:1.724e-04,1.512e-04:6544:3009,3,0:3532,0,0 MT 785 . C . . END=798 GT:DP:MIN_DP:TLOD 0/0:7183:7067:-3.844e+00 MT 799 . A . . END=799 GT:DP:MIN_DP:TLOD 0/0:7207:7207:-3.497e+00 MT 800 . C . . END=800 GT:DP:MIN_DP:TLOD 0/0:7167:7167:-3.548e+00 @@ -762,36 +760,36 @@ MT 1394 . C . . END=1394 GT:DP:MIN_DP:TLOD 0/0:7178:7178:-3.448e+00 MT 1395 . C . . END=1395 GT:DP:MIN_DP:TLOD 0/0:7201:7201:-3.820e+00 MT 1396 . C . . END=1397 GT:DP:MIN_DP:TLOD 0/0:7187:7171:-3.404e+00 MT 1398 . T . . END=1402 GT:DP:MIN_DP:TLOD 0/0:7194:7185:-3.837e+00 -MT 1403 . A C, . base_quality;t_lod CONTQ=93;DP=6623;ECNT=14;MBQ=29,7,0;MFRL=348,437,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.092e-03;SAPP=5.914e-04,1.481e-04,0.999;TLOD=-3.271e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6449,20,0:2.673e-04,1.536e-04:6469:3263,9,0:3186,11,0 +MT 1403 . A C, . base_quality;t_lod CONTQ=93;DP=6623;ECNT=14;MBQ=29,7,0;MFRL=348,437,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.271e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6449,20,0:2.673e-04,1.536e-04:6469:3263,9,0:3186,11,0 MT 1404 . A . . END=1406 GT:DP:MIN_DP:TLOD 0/0:6470:6451:-3.807e+00 -MT 1407 . T A, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=14;MBQ=29,11,0;MFRL=348,387,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.252e-04;SAPP=2.083e-03,4.521e-05,0.998;TLOD=-3.473e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6394,4,0:1.684e-04,1.547e-04:6398:3237,3,0:3157,1,0 +MT 1407 . T A, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=14;MBQ=29,11,0;MFRL=348,387,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.473e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6394,4,0:1.684e-04,1.547e-04:6398:3237,3,0:3157,1,0 MT 1408 . A . . END=1409 GT:DP:MIN_DP:TLOD 0/0:6471:6461:-3.796e+00 -MT 1410 . G T, . base_quality;t_lod CONTQ=93;DP=6603;ECNT=14;MBQ=28,11,0;MFRL=348,449,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.339e-04;SAPP=1.445e-03,6.000e-05,0.998;TLOD=-3.434e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,6,0:1.825e-04,1.541e-04:6425:3241,2,0:3178,4,0 +MT 1410 . G T, . base_quality;t_lod CONTQ=93;DP=6603;ECNT=14;MBQ=28,11,0;MFRL=348,449,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.434e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,6,0:1.825e-04,1.541e-04:6425:3241,2,0:3178,4,0 MT 1411 . G . . END=1411 GT:DP:MIN_DP:TLOD 0/0:6484:6484:-3.800e+00 -MT 1412 . G T, . base_quality;t_lod CONTQ=93;DP=6608;ECNT=14;MBQ=28,12,0;MFRL=349,452,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.330e-04;SAPP=1.445e-03,5.992e-05,0.998;TLOD=-3.481e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,6,0:1.653e-04,1.540e-04:6431:3233,1,0:3192,5,0 -MT 1413 . T G, . base_quality;t_lod CONTQ=93;DP=6609;ECNT=14;MBQ=28,7,0;MFRL=349,359,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.015e-03;SAPP=8.632e-04,2.565e-04,0.999;TLOD=-3.017e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6370,45,0:4.319e-04,1.550e-04:6415:3198,23,0:3172,22,0 +MT 1412 . G T, . base_quality;t_lod CONTQ=93;DP=6608;ECNT=14;MBQ=28,12,0;MFRL=349,452,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.481e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,6,0:1.653e-04,1.540e-04:6431:3233,1,0:3192,5,0 +MT 1413 . T G, . base_quality;t_lod CONTQ=93;DP=6609;ECNT=14;MBQ=28,7,0;MFRL=349,359,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.017e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6370,45,0:4.319e-04,1.550e-04:6415:3198,23,0:3172,22,0 MT 1414 . C . . END=1419 GT:DP:MIN_DP:TLOD 0/0:6496:6401:-3.812e+00 -MT 1420 . T A,G, . base_quality;t_lod CONTQ=93;DP=6627;ECNT=14;MBQ=28,13,8,0;MFRL=350,346,347,0;MMQ=60,60,60,0;MPOS=27,26,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,7.313e-03;SAPP=0.838,1.246e-05,0.161;TLOD=-3.309e+00,-2.866e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6380,6,47,0:1.638e-04,4.221e-04,1.546e-04:6433:3202,0,26,0:3178,6,21,0 +MT 1420 . T A,G, . base_quality;t_lod CONTQ=93;DP=6627;ECNT=14;MBQ=28,13,8,0;MFRL=350,346,347,0;MMQ=60,60,60,0;MPOS=27,26,0;POPAF=7.30,7.30,7.30;TLOD=-3.309e+00,-2.866e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6380,6,47,0:1.638e-04,4.221e-04,1.546e-04:6433:3202,0,26,0:3178,6,21,0 MT 1421 . G . . END=1424 GT:DP:MIN_DP:TLOD 0/0:6525:6521:-3.801e+00 -MT 1425 . T G, . base_quality;t_lod CONTQ=93;DP=6645;ECNT=14;MBQ=29,8,0;MFRL=350,381,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.559e-03;SAPP=1.222e-03,1.293e-04,0.999;TLOD=-3.323e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6440,23,0:2.308e-04,1.535e-04:6463:3199,15,0:3241,8,0 -MT 1426 . T G, . base_quality;t_lod CONTQ=93;DP=6655;ECNT=14;MBQ=29,8,0;MFRL=350,435,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.163e-03;SAPP=2.953e-04,1.999e-04,1.000;TLOD=-3.421e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6458,14,0:1.888e-04,1.531e-04:6472:3214,8,0:3244,6,0 +MT 1425 . T G, . base_quality;t_lod CONTQ=93;DP=6645;ECNT=14;MBQ=29,8,0;MFRL=350,381,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.323e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6440,23,0:2.308e-04,1.535e-04:6463:3199,15,0:3241,8,0 +MT 1426 . T G, . base_quality;t_lod CONTQ=93;DP=6655;ECNT=14;MBQ=29,8,0;MFRL=350,435,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.421e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6458,14,0:1.888e-04,1.531e-04:6472:3214,8,0:3244,6,0 MT 1427 . A . . END=1432 GT:DP:MIN_DP:TLOD 0/0:6566:6554:-3.816e+00 MT 1433 . A . . END=1433 GT:DP:MIN_DP:TLOD 0/0:6611:6611:-3.385e+00 MT 1434 . A . . END=1437 GT:DP:MIN_DP:TLOD 0/0:6605:6595:-3.799e+00 -MT 1438 . A G, . PASS CONTQ=93;DP=6741;ECNT=14;MBQ=11,28,0;MFRL=357,350,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.019,0.040,0.941;TLOD=21123.79,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,6561,0:1.000,1.509e-04:6565:2,3208,0:2,3353,0 +MT 1438 . A G, . PASS CONTQ=93;DP=6741;ECNT=14;MBQ=11,28,0;MFRL=357,350,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=21123.79,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,6561,0:1.000,1.509e-04:6565:2,3208,0:2,3353,0 MT 1439 . A . . END=1442 GT:DP:MIN_DP:TLOD 0/0:6576:6559:-3.796e+00 -MT 1443 . T A,G, . base_quality;t_lod CONTQ=93;DP=6720;ECNT=14;MBQ=28,12,8,0;MFRL=350,384,371,0;MMQ=60,60,60,0;MPOS=20,19,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,8.920e-03;SAPP=0.036,1.240e-04,0.964;TLOD=-3.325e+00,-2.956e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6444,8,58,0:1.578e-04,3.715e-04,1.529e-04:6510:3148,3,28,0:3296,5,30,0 +MT 1443 . T A,G, . base_quality;t_lod CONTQ=93;DP=6720;ECNT=14;MBQ=28,12,8,0;MFRL=350,384,371,0;MMQ=60,60,60,0;MPOS=20,19,0;POPAF=7.30,7.30,7.30;TLOD=-3.325e+00,-2.956e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6444,8,58,0:1.578e-04,3.715e-04,1.529e-04:6510:3148,3,28,0:3296,5,30,0 MT 1444 . A . . END=1447 GT:DP:MIN_DP:TLOD 0/0:6567:6553:-3.801e+00 MT 1448 . T . . END=1448 GT:DP:MIN_DP:TLOD 0/0:6550:6550:-3.466e+00 MT 1449 . G . . END=1451 GT:DP:MIN_DP:TLOD 0/0:6545:6526:-3.799e+00 MT 1452 . T . . END=1452 GT:DP:MIN_DP:TLOD 0/0:6550:6550:-3.471e+00 MT 1453 . A . . END=1453 GT:DP:MIN_DP:TLOD 0/0:6551:6551:-3.810e+00 -MT 1454 . G T, . base_quality;t_lod CONTQ=93;DP=6647;ECNT=14;MBQ=28,19,0;MFRL=349,341,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.043e-04;SAPP=3.922e-04,4.679e-05,1.000;TLOD=-3.518e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6571,2,0:1.516e-04,1.514e-04:6573:3178,1,0:3393,1,0 -MT 1455 . T G, . base_quality;t_lod CONTQ=93;DP=6644;ECNT=14;MBQ=29,7,0;MFRL=349,451,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.049e-04;SAPP=1.089e-04,1.020e-04,1.000;TLOD=-3.518e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6558,2,0:1.518e-04,1.516e-04:6560:3166,1,0:3392,1,0 +MT 1454 . G T, . base_quality;t_lod CONTQ=93;DP=6647;ECNT=14;MBQ=28,19,0;MFRL=349,341,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.518e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6571,2,0:1.516e-04,1.514e-04:6573:3178,1,0:3393,1,0 +MT 1455 . T G, . base_quality;t_lod CONTQ=93;DP=6644;ECNT=14;MBQ=29,7,0;MFRL=349,451,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.518e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6558,2,0:1.518e-04,1.516e-04:6560:3166,1,0:3392,1,0 MT 1456 . T . . END=1461 GT:DP:MIN_DP:TLOD 0/0:6531:6482:-3.812e+00 -MT 1462 . G T, . base_quality;t_lod CONTQ=93;DP=6616;ECNT=14;MBQ=28,11,0;MFRL=348,414,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.199e-04;SAPP=3.064e-04,6.944e-05,1.000;TLOD=-3.511e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6449,4,0:1.541e-04,1.537e-04:6453:3080,1,0:3369,3,0 +MT 1462 . G T, . base_quality;t_lod CONTQ=93;DP=6616;ECNT=14;MBQ=28,11,0;MFRL=348,414,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6449,4,0:1.541e-04,1.537e-04:6453:3080,1,0:3369,3,0 MT 1463 . G . . END=1474 GT:DP:MIN_DP:TLOD 0/0:6459:6432:-3.805e+00 -MT 1475 . C A, . base_quality;t_lod CONTQ=93;DP=6611;ECNT=14;MBQ=25,13,0;MFRL=348,356,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.330e-04;SAPP=1.604e-04,1.627e-04,1.000;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,6,0:1.550e-04,1.543e-04:6431:3052,1,0:3373,5,0 +MT 1475 . C A, . base_quality;t_lod CONTQ=93;DP=6611;ECNT=14;MBQ=25,13,0;MFRL=348,356,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,6,0:1.550e-04,1.543e-04:6431:3052,1,0:3373,5,0 MT 1476 . G . . END=1493 GT:DP:MIN_DP:TLOD 0/0:7016:6868:-3.828e+00 MT 1494 . C . . END=1494 GT:DP:MIN_DP:TLOD 0/0:7093:7093:-3.487e+00 MT 1495 . C . . END=1509 GT:DP:MIN_DP:TLOD 0/0:7086:7020:-3.834e+00 @@ -1050,35 +1048,35 @@ MT 2212 . C . . END=2212 GT:DP:MIN_DP:TLOD 0/0:7168:7168:-3.420e+00 MT 2213 . A . . END=2213 GT:DP:MIN_DP:TLOD 0/0:7192:7192:-3.700e+00 MT 2214 . A . . END=2214 GT:DP:MIN_DP:TLOD 0/0:7184:7184:-3.017e+00 MT 2215 . C . . END=2221 GT:DP:MIN_DP:TLOD 0/0:7166:7123:-3.845e+00 -MT 2222 . T A, . base_quality;t_lod CONTQ=93;DP=6630;ECNT=16;MBQ=29,10,0;MFRL=340,255,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.091e-03;SAPP=9.671e-05,4.714e-04,0.999;TLOD=-3.508e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6408,7,0:1.551e-04,1.543e-04:6415:3131,2,0:3277,5,0 +MT 2222 . T A, . base_quality;t_lod CONTQ=93;DP=6630;ECNT=16;MBQ=29,10,0;MFRL=340,255,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6408,7,0:1.551e-04,1.543e-04:6415:3131,2,0:3277,5,0 MT 2223 . A . . END=2225 GT:DP:MIN_DP:TLOD 0/0:6497:6488:-3.809e+00 -MT 2226 . T A, . base_quality;t_lod CONTQ=93;DP=6644;ECNT=16;MBQ=29,13,0;MFRL=340,352,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.084e-03;SAPP=6.431e-04,8.406e-05,0.999;TLOD=-3.511e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6451,7,0:1.542e-04,1.534e-04:6458:3134,6,0:3317,1,0 +MT 2226 . T A, . base_quality;t_lod CONTQ=93;DP=6644;ECNT=16;MBQ=29,13,0;MFRL=340,352,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6451,7,0:1.542e-04,1.534e-04:6458:3134,6,0:3317,1,0 MT 2227 . A . . END=2229 GT:DP:MIN_DP:TLOD 0/0:6529:6523:-3.805e+00 -MT 2230 . A C, . base_quality;t_lod CONTQ=93;DP=6653;ECNT=16;MBQ=29,8,0;MFRL=340,386,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.170e-03;SAPP=4.950e-05,0.303,0.697;TLOD=-3.311e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6448,27,0:2.486e-04,1.534e-04:6475:3108,16,0:3340,11,0 +MT 2230 . A C, . base_quality;t_lod CONTQ=93;DP=6653;ECNT=16;MBQ=29,8,0;MFRL=340,386,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;TLOD=-3.311e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6448,27,0:2.486e-04,1.534e-04:6475:3108,16,0:3340,11,0 MT 2231 . A . . END=2231 GT:DP:MIN_DP:TLOD 0/0:6532:6532:-3.596e+00 -MT 2232 . A C,T, . base_quality;t_lod CONTQ=93;DP=6663;ECNT=16;MBQ=28,7,10,0;MFRL=340,351,289,0;MMQ=60,60,60,0;MPOS=46,1,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.862e-03;SAPP=3.059e-04,3.298e-04,0.999;TLOD=-3.076e+00,-3.337e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6448,25,3,0:2.783e-04,1.535e-04,1.532e-04:6476:3104,12,1,0:3344,13,2,0 -MT 2233 . T A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=16;MBQ=28,12,0;MFRL=340,393,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.710e-03;SAPP=2.632e-04,1.475e-04,1.000;TLOD=-3.509e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6423,11,0:1.550e-04,1.538e-04:6434:3081,4,0:3342,7,0 +MT 2232 . A C,T, . base_quality;t_lod CONTQ=93;DP=6663;ECNT=16;MBQ=28,7,10,0;MFRL=340,351,289,0;MMQ=60,60,60,0;MPOS=46,1,0;POPAF=7.30,7.30,7.30;TLOD=-3.076e+00,-3.337e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6448,25,3,0:2.783e-04,1.535e-04,1.532e-04:6476:3104,12,1,0:3344,13,2,0 +MT 2233 . T A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=16;MBQ=28,12,0;MFRL=340,393,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6423,11,0:1.550e-04,1.538e-04:6434:3081,4,0:3342,7,0 MT 2234 . C . . END=2235 GT:DP:MIN_DP:TLOD 0/0:6528:6525:-3.663e+00 -MT 2236 . C A, . base_quality;t_lod CONTQ=93;DP=6673;ECNT=16;MBQ=28,14,0;MFRL=341,350,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.232e-03;SAPP=3.919e-03,5.890e-05,0.996;TLOD=-3.423e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6484,8,0:1.879e-04,1.526e-04:6492:3100,4,0:3384,4,0 +MT 2236 . C A, . base_quality;t_lod CONTQ=93;DP=6673;ECNT=16;MBQ=28,14,0;MFRL=341,350,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.423e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6484,8,0:1.879e-04,1.526e-04:6492:3100,4,0:3384,4,0 MT 2237 . A . . END=2238 GT:DP:MIN_DP:TLOD 0/0:6549:6549:-3.758e+00 -MT 2239 . A C, . base_quality;t_lod CONTQ=93;DP=6692;ECNT=16;MBQ=29,7,0;MFRL=340,373,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.229e-03;SAPP=7.313e-05,0.023,0.977;TLOD=-3.487e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6482,21,0:1.633e-04,1.525e-04:6503:3094,8,0:3388,13,0 +MT 2239 . A C, . base_quality;t_lod CONTQ=93;DP=6692;ECNT=16;MBQ=29,7,0;MFRL=340,373,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.487e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6482,21,0:1.633e-04,1.525e-04:6503:3094,8,0:3388,13,0 MT 2240 . C . . END=2245 GT:DP:MIN_DP:TLOD 0/0:6545:6526:-3.810e+00 -MT 2246 . A C, . base_quality;t_lod CONTQ=93;DP=6728;ECNT=16;MBQ=28,7,0;MFRL=341,369,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.513e-03;SAPP=6.518e-05,0.075,0.925;TLOD=-3.478e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6524,23,0:1.669e-04,1.517e-04:6547:3107,11,0:3417,12,0 +MT 2246 . A C, . base_quality;t_lod CONTQ=93;DP=6728;ECNT=16;MBQ=28,7,0;MFRL=341,369,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6524,23,0:1.669e-04,1.517e-04:6547:3107,11,0:3417,12,0 MT 2247 . C . . END=2247 GT:DP:MIN_DP:TLOD 0/0:6545:6545:-3.814e+00 -MT 2248 . T A, . base_quality;t_lod CONTQ=93;DP=6735;ECNT=16;MBQ=29,13,0;MFRL=341,448,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.681e-03;SAPP=8.374e-05,1.043e-03,0.999;TLOD=-3.469e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6531,11,0:1.696e-04,1.515e-04:6542:3114,7,0:3417,4,0 +MT 2248 . T A, . base_quality;t_lod CONTQ=93;DP=6735;ECNT=16;MBQ=29,13,0;MFRL=341,448,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.469e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6531,11,0:1.696e-04,1.515e-04:6542:3114,7,0:3417,4,0 MT 2249 . G . . END=2250 GT:DP:MIN_DP:TLOD 0/0:6527:6507:-3.784e+00 -MT 2251 . A C,T, . base_quality;t_lod CONTQ=93;DP=6729;ECNT=16;MBQ=28,7,12,0;MFRL=342,438,416,0;MMQ=60,60,60,0;MPOS=28,49,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,9.790e-03;SAPP=4.494e-10,1.000,6.946e-06;TLOD=-2.998e+00,-3.290e+00,-3.340e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6473,64,11,0:3.500e-04,1.709e-04,1.525e-04:6548:3086,35,2,0:3387,29,9,0 +MT 2251 . A C,T, . base_quality;t_lod CONTQ=93;DP=6729;ECNT=16;MBQ=28,7,12,0;MFRL=342,438,416,0;MMQ=60,60,60,0;MPOS=28,49,0;POPAF=7.30,7.30,7.30;TLOD=-2.998e+00,-3.290e+00,-3.340e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6473,64,11,0:3.500e-04,1.709e-04,1.525e-04:6548:3086,35,2,0:3387,29,9,0 MT 2252 . C . . END=2252 GT:DP:MIN_DP:TLOD 0/0:6499:6499:-3.730e+00 -MT 2253 . T A, . base_quality;t_lod CONTQ=93;DP=6739;ECNT=16;MBQ=28,12,0;MFRL=342,426,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.380e-03;SAPP=1.439e-04,2.600e-04,1.000;TLOD=-3.515e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6511,9,0:1.528e-04,1.518e-04:6520:3097,6,0:3414,3,0 +MT 2253 . T A, . base_quality;t_lod CONTQ=93;DP=6739;ECNT=16;MBQ=28,12,0;MFRL=342,426,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6511,9,0:1.528e-04,1.518e-04:6520:3097,6,0:3414,3,0 MT 2254 . C . . END=2258 GT:DP:MIN_DP:TLOD 0/0:6579:6562:-3.819e+00 -MT 2259 . C T, . PASS CONTQ=93;DP=6735;ECNT=16;MBQ=6,29,0;MFRL=389,341,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.011,0.089,0.900;TLOD=21385.76,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:23,6545,0:0.999,1.512e-04:6568:6,3106,0:17,3439,0 +MT 2259 . C T, . PASS CONTQ=93;DP=6735;ECNT=16;MBQ=6,29,0;MFRL=389,341,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=21385.76,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:23,6545,0:0.999,1.512e-04:6568:6,3106,0:17,3439,0 MT 2260 . A . . END=2271 GT:DP:MIN_DP:TLOD 0/0:6532:6466:-3.808e+00 -MT 2272 . C A, . base_quality;t_lod CONTQ=93;DP=6667;ECNT=16;MBQ=28,13,0;MFRL=339,370,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.307e-03;SAPP=5.408e-03,7.955e-05,0.995;TLOD=-3.432e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6486,15,0:1.855e-04,1.527e-04:6501:3036,4,0:3450,11,0 -MT 2273 . A C, . base_quality;t_lod CONTQ=93;DP=6675;ECNT=16;MBQ=29,7,0;MFRL=339,432,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.690e-03;SAPP=1.413e-04,2.708e-04,1.000;TLOD=-3.454e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6498,11,0:1.751e-04,1.524e-04:6509:3036,4,0:3462,7,0 +MT 2272 . C A, . base_quality;t_lod CONTQ=93;DP=6667;ECNT=16;MBQ=28,13,0;MFRL=339,370,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.432e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6486,15,0:1.855e-04,1.527e-04:6501:3036,4,0:3450,11,0 +MT 2273 . A C, . base_quality;t_lod CONTQ=93;DP=6675;ECNT=16;MBQ=29,7,0;MFRL=339,432,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.454e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6498,11,0:1.751e-04,1.524e-04:6509:3036,4,0:3462,7,0 MT 2274 . A . . END=2280 GT:DP:MIN_DP:TLOD 0/0:6531:6509:-3.796e+00 -MT 2281 . A C, . base_quality;t_lod CONTQ=93;DP=6694;ECNT=16;MBQ=28,8,0;MFRL=340,318,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.363e-03;SAPP=4.247e-05,0.072,0.928;TLOD=-3.479e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6593,9,0:1.663e-04,1.507e-04:6602:3063,5,0:3530,4,0 +MT 2281 . A C, . base_quality;t_lod CONTQ=93;DP=6694;ECNT=16;MBQ=28,8,0;MFRL=340,318,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;TLOD=-3.479e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6593,9,0:1.663e-04,1.507e-04:6602:3063,5,0:3530,4,0 MT 2282 . C . . END=2282 GT:DP:MIN_DP:TLOD 0/0:6541:6541:-3.815e+00 -MT 2283 . C A, . base_quality;t_lod CONTQ=93;DP=6711;ECNT=16;MBQ=28,14,0;MFRL=339,368,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.837e-03;SAPP=1.209e-03,8.718e-05,0.999;TLOD=-3.176e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6520,12,0:3.114e-04,1.517e-04:6532:3033,5,0:3487,7,0 +MT 2283 . C A, . base_quality;t_lod CONTQ=93;DP=6711;ECNT=16;MBQ=28,14,0;MFRL=339,368,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.176e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6520,12,0:3.114e-04,1.517e-04:6532:3033,5,0:3487,7,0 MT 2284 . C . . END=2284 GT:DP:MIN_DP:TLOD 0/0:7205:7205:-3.365e+00 MT 2285 . T . . END=2289 GT:DP:MIN_DP:TLOD 0/0:7203:7187:-3.821e+00 MT 2290 . A . . END=2290 GT:DP:MIN_DP:TLOD 0/0:7218:7218:-3.427e+00 @@ -1332,36 +1330,36 @@ MT 3051 . A . . END=3051 GT:DP:MIN_DP:TLOD 0/0:7168:7168:-3.682e+00 MT 3052 . A . . END=3052 GT:DP:MIN_DP:TLOD 0/0:7160:7160:-3.060e+00 MT 3053 . A . . END=3062 GT:DP:MIN_DP:TLOD 0/0:7154:7068:-3.822e+00 MT 3063 . G . . END=3063 GT:DP:MIN_DP:TLOD 0/0:7177:7177:-3.471e+00 -MT 3064 . A C, . base_quality;t_lod CONTQ=93;DP=6553;ECNT=13;MBQ=28,7,0;MFRL=343,365,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.860e-03;SAPP=7.529e-04,1.950e-04,0.999;TLOD=-3.482e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6348,31,0:1.648e-04,1.557e-04:6379:3098,23,0:3250,8,0 +MT 3064 . A C, . base_quality;t_lod CONTQ=93;DP=6553;ECNT=13;MBQ=28,7,0;MFRL=343,365,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.482e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6348,31,0:1.648e-04,1.557e-04:6379:3098,23,0:3250,8,0 MT 3065 . T . . END=3074 GT:DP:MIN_DP:TLOD 0/0:6474:6456:-3.809e+00 -MT 3075 . G T, . base_quality;t_lod CONTQ=93;DP=6580;ECNT=13;MBQ=28,13,0;MFRL=343,375,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.689e-04;SAPP=8.489e-05,1.703e-04,1.000;TLOD=-3.472e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6395,3,0:1.687e-04,1.548e-04:6398:3094,3,0:3301,0,0 +MT 3075 . G T, . base_quality;t_lod CONTQ=93;DP=6580;ECNT=13;MBQ=28,13,0;MFRL=343,375,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.472e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6395,3,0:1.687e-04,1.548e-04:6398:3094,3,0:3301,0,0 MT 3076 . A . . END=3077 GT:DP:MIN_DP:TLOD 0/0:6445:6434:-3.730e+00 MT 3078 . C . . END=3078 GT:DP:MIN_DP:TLOD 0/0:6458:6458:-3.485e+00 MT 3079 . G . . END=3083 GT:DP:MIN_DP:TLOD 0/0:6443:6417:-3.806e+00 -MT 3084 . A C, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=13;MBQ=29,8,0;MFRL=343,315,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.495e-03;SAPP=2.074e-04,3.710e-04,0.999;TLOD=-3.497e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6398,16,0:1.593e-04,1.546e-04:6414:3095,10,0:3303,6,0 -MT 3085 . A T, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=13;MBQ=29,11,0;MFRL=343,387,0;MMQ=60,60,0;MPOS=55,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.704e-04;SAPP=5.084e-05,7.003e-04,0.999;TLOD=-3.497e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6374,3,0:1.593e-04,1.549e-04:6377:3083,0,0:3291,3,0 +MT 3084 . A C, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=13;MBQ=29,8,0;MFRL=343,315,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6398,16,0:1.593e-04,1.546e-04:6414:3095,10,0:3303,6,0 +MT 3085 . A T, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=13;MBQ=29,11,0;MFRL=343,387,0;MMQ=60,60,0;MPOS=55,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6374,3,0:1.593e-04,1.549e-04:6377:3083,0,0:3291,3,0 MT 3086 . T . . END=3087 GT:DP:MIN_DP:TLOD 0/0:6434:6425:-3.708e+00 -MT 3088 . C A, . base_quality;t_lod CONTQ=93;DP=6581;ECNT=13;MBQ=29,14,0;MFRL=343,324,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.805e-04;SAPP=1.113e-04,1.792e-04,1.000;TLOD=-3.435e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6401,5,0:1.841e-04,1.547e-04:6406:3088,1,0:3313,4,0 +MT 3088 . C A, . base_quality;t_lod CONTQ=93;DP=6581;ECNT=13;MBQ=29,14,0;MFRL=343,324,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.435e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6401,5,0:1.841e-04,1.547e-04:6406:3088,1,0:3313,4,0 MT 3089 . A . . END=3093 GT:DP:MIN_DP:TLOD 0/0:6414:6397:-3.805e+00 -MT 3094 . G A,T, . base_quality;t_lod CONTQ=93;DP=6578;ECNT=13;MBQ=25,14,13,0;MFRL=344,415,473,0;MMQ=60,60,60,0;MPOS=33,27,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,7.826e-04;SAPP=1.092e-04,1.854e-04,1.000;TLOD=-3.331e+00,-3.308e+00,-3.332e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6384,4,5,0:1.556e-04,1.642e-04,1.551e-04:6393:3079,2,2,0:3305,2,3,0 +MT 3094 . G A,T, . base_quality;t_lod CONTQ=93;DP=6578;ECNT=13;MBQ=25,14,13,0;MFRL=344,415,473,0;MMQ=60,60,60,0;MPOS=33,27,0;POPAF=7.30,7.30,7.30;TLOD=-3.331e+00,-3.308e+00,-3.332e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6384,4,5,0:1.556e-04,1.642e-04,1.551e-04:6393:3079,2,2,0:3305,2,3,0 MT 3095 . G . . END=3106 GT:DP:MIN_DP:TLOD 0/0:6445:6402:-3.804e+00 MT 3107 . N . . END=3107 GT:DP:MIN_DP:TLOD 0/0:6478:6478:13519.32 MT 3108 . T . . END=3117 GT:DP:MIN_DP:TLOD 0/0:6398:6325:-3.807e+00 -MT 3118 . T A, . base_quality;t_lod CONTQ=93;DP=6563;ECNT=13;MBQ=28,12,0;MFRL=345,296,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.636e-04;SAPP=1.932e-04,7.700e-05,1.000;TLOD=-3.419e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6468,3,0:1.879e-04,1.537e-04:6471:3086,2,0:3382,1,0 +MT 3118 . T A, . base_quality;t_lod CONTQ=93;DP=6563;ECNT=13;MBQ=28,12,0;MFRL=345,296,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-3.419e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6468,3,0:1.879e-04,1.537e-04:6471:3086,2,0:3382,1,0 MT 3119 . C . . END=3123 GT:DP:MIN_DP:TLOD 0/0:6422:6389:-3.793e+00 -MT 3124 . T TCCGAAAGGACAAGAGA, . base_quality;t_lod CONTQ=93;DP=6554;ECNT=13;MBQ=29,2,0;MFRL=345,400,0;MMQ=60,60,0;MPOS=-1,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.105e-03;SAPP=2.258e-03,6.225e-05,0.998;TLOD=-3.506e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6330,7,0:1.561e-04,1.554e-04:6337:2990,3,0:3340,4,0 +MT 3124 . T TCCGAAAGGACAAGAGA, . base_quality;t_lod CONTQ=93;DP=6554;ECNT=13;MBQ=29,2,0;MFRL=345,400,0;MMQ=60,60,0;MPOS=-1,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6330,7,0:1.561e-04,1.554e-04:6337:2990,3,0:3340,4,0 MT 3125 . A . . END=3125 GT:DP:MIN_DP:TLOD 0/0:6424:6424:-3.777e+00 -MT 3126 . C T, . t_lod CONTQ=93;DP=6556;ECNT=13;MBQ=25,28,0;MFRL=345,287,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.415e-04;SAPP=3.614e-04,9.384e-05,1.000;TLOD=-2.903e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6367,6,0:4.484e-04,1.555e-04:6373:3010,2,0:3357,4,0 +MT 3126 . C T, . t_lod CONTQ=93;DP=6556;ECNT=13;MBQ=25,28,0;MFRL=345,287,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;TLOD=-2.903e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6367,6,0:4.484e-04,1.555e-04:6373:3010,2,0:3357,4,0 MT 3127 . G . . END=3127 GT:DP:MIN_DP:TLOD 0/0:6405:6405:-3.772e+00 MT 3128 . A . . END=3128 GT:DP:MIN_DP:TLOD 0/0:6436:6436:-3.344e+00 MT 3129 . A . . END=3134 GT:DP:MIN_DP:TLOD 0/0:6426:6401:-3.791e+00 -MT 3135 . A G, . base_quality;t_lod CONTQ=93;DP=6512;ECNT=13;MBQ=29,16,0;MFRL=344,325,0;MMQ=60,60,0;MPOS=63,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.467e-04;SAPP=1.745e-04,1.556e-04,1.000;TLOD=-3.383e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6332,6,0:2.016e-04,1.561e-04:6338:2992,5,0:3340,1,0 +MT 3135 . A G, . base_quality;t_lod CONTQ=93;DP=6512;ECNT=13;MBQ=29,16,0;MFRL=344,325,0;MMQ=60,60,0;MPOS=63,0;POPAF=7.30,7.30;TLOD=-3.383e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6332,6,0:2.016e-04,1.561e-04:6338:2992,5,0:3340,1,0 MT 3136 . A . . END=3137 GT:DP:MIN_DP:TLOD 0/0:6397:6396:-3.760e+00 -MT 3138 . A C, . base_quality;t_lod CONTQ=93;DP=6496;ECNT=13;MBQ=28,6,0;MFRL=345,606,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.898e-04;SAPP=5.681e-04,6.769e-05,0.999;TLOD=-3.487e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6326,5,0:1.630e-04,1.565e-04:6331:2977,1,0:3349,4,0 +MT 3138 . A C, . base_quality;t_lod CONTQ=93;DP=6496;ECNT=13;MBQ=28,6,0;MFRL=345,606,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.487e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6326,5,0:1.630e-04,1.565e-04:6331:2977,1,0:3349,4,0 MT 3139 . G . . END=3140 GT:DP:MIN_DP:TLOD 0/0:6392:6390:-3.792e+00 -MT 3141 . A C, . base_quality;t_lod CONTQ=93;DP=6497;ECNT=13;MBQ=29,8,0;MFRL=344,350,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.528e-03;SAPP=2.963e-04,2.529e-04,0.999;TLOD=-3.462e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6314,16,0:1.729e-04,1.566e-04:6330:2960,9,0:3354,7,0 +MT 3141 . A C, . base_quality;t_lod CONTQ=93;DP=6497;ECNT=13;MBQ=29,8,0;MFRL=344,350,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.462e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6314,16,0:1.729e-04,1.566e-04:6330:2960,9,0:3354,7,0 MT 3142 . A . . END=3145 GT:DP:MIN_DP:TLOD 0/0:6393:6379:-3.791e+00 -MT 3146 . G T, . base_quality;t_lod CONTQ=93;DP=6497;ECNT=13;MBQ=29,13,0;MFRL=344,281,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.581e-03;SAPP=7.707e-04,9.049e-05,0.999;TLOD=-3.455e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6317,10,0:1.756e-04,1.567e-04:6327:2961,4,0:3356,6,0 +MT 3146 . G T, . base_quality;t_lod CONTQ=93;DP=6497;ECNT=13;MBQ=29,13,0;MFRL=344,281,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.455e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6317,10,0:1.756e-04,1.567e-04:6327:2961,4,0:3356,6,0 MT 3147 . G . . END=3161 GT:DP:MIN_DP:TLOD 0/0:7107:6942:-3.808e+00 MT 3162 . C . . END=3163 GT:DP:MIN_DP:TLOD 0/0:6971:6910:-3.244e+00 MT 3164 . C . . END=3166 GT:DP:MIN_DP:TLOD 0/0:7044:7037:-3.754e+00 @@ -1994,27 +1992,27 @@ MT 4692 . C . . END=4705 GT:DP:MIN_DP:TLOD 0/0:86:80:-1.959e+00 MT 4706 . A . . END=4706 GT:DP:MIN_DP:TLOD 0/0:90:90:-8.959e-01 MT 4707 . C . . END=4710 GT:DP:MIN_DP:TLOD 0/0:92:91:-1.967e+00 MT 4711 . C . . END=4712 GT:DP:MIN_DP:TLOD 0/0:93:92:-1.456e+00 -MT 4713 . G A, . t_lod CONTQ=93;DP=44;ECNT=8;MBQ=23,28,0;MFRL=365,382,0;MMQ=60,59,0;MPOS=68,0;POPAF=7.30,7.30;SAAF=0.051,0.00,0.045;SAPP=2.240e-03,0.345,0.653;TLOD=4.65,-1.362e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:42,2,0:0.064,0.021:44:15,0,0:27,2,0:0|1:4713_G_A:4713 +MT 4713 . G A, . t_lod CONTQ=93;DP=44;ECNT=8;MBQ=23,28,0;MFRL=365,382,0;MMQ=60,59,0;MPOS=68,0;POPAF=7.30,7.30;TLOD=4.65,-1.362e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:42,2,0:0.064,0.021:44:15,0,0:27,2,0:0|1:4713_G_A:4713 MT 4714 . G . . END=4718 GT:DP:MIN_DP:TLOD 0/0:44:44:-1.653e+00 MT 4719 . T . . END=4719 GT:DP:MIN_DP:TLOD 0/0:44:44:-1.277e+00 -MT 4720 . G A, . t_lod CONTQ=93;DP=45;ECNT=8;MBQ=28,28,0;MFRL=365,382,0;MMQ=60,59,0;MPOS=61,0;POPAF=7.30,7.30;SAAF=0.040,0.00,0.044;SAPP=2.428e-03,0.290,0.707;TLOD=4.63,-1.370e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:43,2,0:0.063,0.021:45:16,0,0:27,2,0:0|1:4713_G_A:4713 +MT 4720 . G A, . t_lod CONTQ=93;DP=45;ECNT=8;MBQ=28,28,0;MFRL=365,382,0;MMQ=60,59,0;MPOS=61,0;POPAF=7.30,7.30;TLOD=4.63,-1.370e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:43,2,0:0.063,0.021:45:16,0,0:27,2,0:0|1:4713_G_A:4713 MT 4721 . A . . END=4722 GT:DP:MIN_DP:TLOD 0/0:45:44:-1.662e+00 MT 4723 . C . . END=4723 GT:DP:MIN_DP:TLOD 0/0:46:46:-1.431e+00 MT 4724 . C . . END=4744 GT:DP:MIN_DP:TLOD 0/0:49:44:-1.707e+00 -MT 4745 . A G, . PASS CONTQ=93;DP=50;ECNT=8;MBQ=13,27,0;MFRL=511,365,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.980,0.980,0.980;SAPP=0.028,0.026,0.946;TLOD=139.11,-1.406e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,49,0:0.960,0.019:50:1,17,0:0,32,0 +MT 4745 . A G, . PASS CONTQ=93;DP=50;ECNT=8;MBQ=13,27,0;MFRL=511,365,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=139.11,-1.406e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,49,0:0.960,0.019:50:1,17,0:0,32,0 MT 4746 . T . . END=4765 GT:DP:MIN_DP:TLOD 0/0:52:47:-1.998e+00 MT 4766 . A . . END=4768 GT:DP:MIN_DP:TLOD 0/0:180:139:-2.362e+00 -MT 4769 . A T,G, . PASS CONTQ=93;DP=371;ECNT=8;MBQ=11,11,27,0;MFRL=365,317,334,0;MMQ=60,57,60,0;MPOS=43,2,0;POPAF=7.30,7.30,7.30;SAAF=0.798,0.778,0.808;SAPP=6.117e-03,0.280,0.714;TLOD=-1.811e+00,643.99,-2.094e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:55,1,231,0:4.213e-03,0.805,2.674e-03:287:22,0,109,0:33,1,122,0 +MT 4769 . A T,G, . PASS CONTQ=93;DP=371;ECNT=8;MBQ=11,11,27,0;MFRL=365,317,334,0;MMQ=60,57,60,0;MPOS=43,2,0;POPAF=7.30,7.30,7.30;TLOD=-1.811e+00,643.99,-2.094e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:55,1,231,0:4.213e-03,0.805,2.674e-03:287:22,0,109,0:33,1,122,0 MT 4770 . G . . END=4770 GT:DP:MIN_DP:TLOD 0/0:311:311:-2.502e+00 MT 4771 . C . . END=4772 GT:DP:MIN_DP:TLOD 0/0:372:352:-2.437e+00 MT 4773 . A . . END=4775 GT:DP:MIN_DP:TLOD 0/0:464:428:-2.717e+00 -MT 4776 . G A, . t_lod CONTQ=93;DP=654;ECNT=8;MBQ=28,24,0;MFRL=336,465,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.329e-03;SAPP=6.458e-04,4.048e-03,0.995;TLOD=-1.340e+00,-2.478e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:560,3,0:4.594e-03,1.665e-03:563:263,0,0:297,3,0 +MT 4776 . G A, . t_lod CONTQ=93;DP=654;ECNT=8;MBQ=28,24,0;MFRL=336,465,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-1.340e+00,-2.478e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:560,3,0:4.594e-03,1.665e-03:563:263,0,0:297,3,0 MT 4777 . C . . END=4780 GT:DP:MIN_DP:TLOD 0/0:661:601:-2.853e+00 -MT 4781 . A C, . base_quality;t_lod CONTQ=93;DP=869;ECNT=8;MBQ=29,13,0;MFRL=338,235,0;MMQ=60,59,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.554e-03;SAPP=5.334e-04,1.385e-03,0.998;TLOD=-2.585e+00,-2.613e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:781,2,0:1.302e-03,1.220e-03:783:353,0,0:428,2,0 +MT 4781 . A C, . base_quality;t_lod CONTQ=93;DP=869;ECNT=8;MBQ=29,13,0;MFRL=338,235,0;MMQ=60,59,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-2.585e+00,-2.613e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:781,2,0:1.302e-03,1.220e-03:783:353,0,0:428,2,0 MT 4782 . A . . END=4782 GT:DP:MIN_DP:TLOD 0/0:815:815:-2.901e+00 -MT 4783 . A C, . base_quality;t_lod CONTQ=93;DP=958;ECNT=8;MBQ=28,9,0;MFRL=335,327,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.102e-03;SAPP=5.612e-04,5.219e-03,0.994;TLOD=-2.636e+00,-2.653e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:857,7,0:1.158e-03,1.113e-03:864:382,3,0:475,4,0 +MT 4783 . A C, . base_quality;t_lod CONTQ=93;DP=958;ECNT=8;MBQ=28,9,0;MFRL=335,327,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-2.636e+00,-2.653e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:857,7,0:1.158e-03,1.113e-03:864:382,3,0:475,4,0 MT 4784 . A . . END=4784 GT:DP:MIN_DP:TLOD 0/0:901:901:-2.935e+00 -MT 4785 . C A, . t_lod CONTQ=93;DP=1045;ECNT=8;MBQ=27,22,0;MFRL=336,433,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.145e-03;SAPP=1.977e-03,4.846e-04,0.998;TLOD=-2.205e+00,-2.695e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:951,3,0:2.157e-03,1.008e-03:954:426,2,0:525,1,0 +MT 4785 . C A, . t_lod CONTQ=93;DP=1045;ECNT=8;MBQ=27,22,0;MFRL=336,433,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-2.205e+00,-2.695e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:951,3,0:2.157e-03,1.008e-03:954:426,2,0:525,1,0 MT 4786 . T . . END=4792 GT:DP:MIN_DP:TLOD 0/0:1228:1095:-2.998e+00 MT 4793 . A . . END=4803 GT:DP:MIN_DP:TLOD 0/0:1681:1370:-3.259e+00 MT 4804 . A . . END=4804 GT:DP:MIN_DP:TLOD 0/0:1949:1949:-2.551e+00 @@ -2996,30 +2994,30 @@ MT 7277 . A . . END=7284 GT:DP:MIN_DP:TLOD 0/0:6016:5856:-3.755e+00 MT 7285 . C . . END=7285 GT:DP:MIN_DP:TLOD 0/0:5807:5807:-3.464e+00 MT 7286 . T . . END=7298 GT:DP:MIN_DP:TLOD 0/0:5482:5179:-3.755e+00 MT 7299 . A . . END=7299 GT:DP:MIN_DP:TLOD 0/0:5113:5113:-2.653e+00 -MT 7300 . T G, . base_quality;t_lod CONTQ=93;DP=4445;ECNT=10;MBQ=29,9,0;MFRL=337,400,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.072e-03;SAPP=2.018e-03,1.111e-04,0.998;TLOD=-3.315e+00,-3.340e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4335,9,0:2.422e-04,2.285e-04:4344:2064,4,0:2271,5,0 +MT 7300 . T G, . base_quality;t_lod CONTQ=93;DP=4445;ECNT=10;MBQ=29,9,0;MFRL=337,400,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.315e+00,-3.340e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4335,9,0:2.422e-04,2.285e-04:4344:2064,4,0:2271,5,0 MT 7301 . A . . END=7301 GT:DP:MIN_DP:TLOD 0/0:4317:4317:-3.627e+00 -MT 7302 . T A, . base_quality;t_lod CONTQ=93;DP=4348;ECNT=10;MBQ=29,14,0;MFRL=337,300,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.353e-04;SAPP=2.242e-04,7.342e-05,1.000;TLOD=-3.331e+00,-3.331e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4249,1,0:2.336e-04,2.333e-04:4250:2022,0,0:2227,1,0 +MT 7302 . T A, . base_quality;t_lod CONTQ=93;DP=4348;ECNT=10;MBQ=29,14,0;MFRL=337,300,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.331e+00,-3.331e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4249,1,0:2.336e-04,2.333e-04:4250:2022,0,0:2227,1,0 MT 7303 . T . . END=7310 GT:DP:MIN_DP:TLOD 0/0:4082:3937:-3.620e+00 MT 7311 . T . . END=7311 GT:DP:MIN_DP:TLOD 0/0:3896:3896:-3.301e+00 MT 7312 . T . . END=7312 GT:DP:MIN_DP:TLOD 0/0:3854:3854:-3.579e+00 -MT 7313 . C A, . base_quality;t_lod CONTQ=93;DP=3889;ECNT=10;MBQ=28,12,0;MFRL=336,341,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.053e-03;SAPP=2.532e-03,8.280e-05,0.997;TLOD=-3.277e+00,-3.282e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3795,4,0:2.645e-04,2.610e-04:3799:1781,1,0:2014,3,0 -MT 7314 . A C, . base_quality;t_lod CONTQ=93;DP=3848;ECNT=10;MBQ=29,7,0;MFRL=336,384,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.863e-03;SAPP=0.020,8.234e-05,0.980;TLOD=-3.273e+00,-3.277e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3750,7,0:2.669e-04,2.639e-04:3757:1763,2,0:1987,5,0 +MT 7313 . C A, . base_quality;t_lod CONTQ=93;DP=3889;ECNT=10;MBQ=28,12,0;MFRL=336,341,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.277e+00,-3.282e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3795,4,0:2.645e-04,2.610e-04:3799:1781,1,0:2014,3,0 +MT 7314 . A C, . base_quality;t_lod CONTQ=93;DP=3848;ECNT=10;MBQ=29,7,0;MFRL=336,384,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.273e+00,-3.277e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3750,7,0:2.669e-04,2.639e-04:3757:1763,2,0:1987,5,0 MT 7315 . T . . END=7315 GT:DP:MIN_DP:TLOD 0/0:3714:3714:-3.456e+00 MT 7316 . G . . END=7319 GT:DP:MIN_DP:TLOD 0/0:3597:3538:-3.555e+00 MT 7320 . T . . END=7320 GT:DP:MIN_DP:TLOD 0/0:3492:3492:-3.481e+00 MT 7321 . G . . END=7324 GT:DP:MIN_DP:TLOD 0/0:3373:3310:-3.535e+00 -MT 7325 . A C, . base_quality;t_lod CONTQ=93;DP=3364;ECNT=10;MBQ=29,6,0;MFRL=335,342,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.440e-03;SAPP=1.508e-03,1.602e-04,0.998;TLOD=-3.140e+00,-3.218e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3271,8,0:3.599e-04,3.023e-04:3279:1530,5,0:1741,3,0 -MT 7326 . G T, . base_quality;t_lod CONTQ=93;DP=3319;ECNT=10;MBQ=29,12,0;MFRL=335,403,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.274e-04;SAPP=1.389e-03,9.823e-05,0.999;TLOD=-3.211e+00,-3.213e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3232,3,0:3.077e-04,3.064e-04:3235:1507,2,0:1725,1,0 +MT 7325 . A C, . base_quality;t_lod CONTQ=93;DP=3364;ECNT=10;MBQ=29,6,0;MFRL=335,342,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.140e+00,-3.218e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3271,8,0:3.599e-04,3.023e-04:3279:1530,5,0:1741,3,0 +MT 7326 . G T, . base_quality;t_lod CONTQ=93;DP=3319;ECNT=10;MBQ=29,12,0;MFRL=335,403,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.211e+00,-3.213e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3232,3,0:3.077e-04,3.064e-04:3235:1507,2,0:1725,1,0 MT 7327 . C . . END=7334 GT:DP:MIN_DP:TLOD 0/0:3045:2896:-3.487e+00 MT 7335 . T . . END=7335 GT:DP:MIN_DP:TLOD 0/0:2853:2853:-2.986e+00 MT 7336 . C . . END=7336 GT:DP:MIN_DP:TLOD 0/0:2812:2812:-3.443e+00 -MT 7337 . G A, . PASS CONTQ=93;DP=2863;ECNT=10;MBQ=21,29,0;MFRL=328,333,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.017,0.047,0.936;TLOD=9139.52,-3.147e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:8,2765,0:0.998,3.563e-04:2773:4,1274,0:4,1491,0 +MT 7337 . G A, . PASS CONTQ=93;DP=2863;ECNT=10;MBQ=21,29,0;MFRL=328,333,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=9139.52,-3.147e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:8,2765,0:0.998,3.563e-04:2773:4,1274,0:4,1491,0 MT 7338 . A . . END=7341 GT:DP:MIN_DP:TLOD 0/0:2663:2592:-3.414e+00 -MT 7342 . G A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=2653;ECNT=10;MBQ=26,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=1.174e-04,1.196e-04,1.000;TLOD=-3.123e+00,-3.123e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2653,0,0:3.766e-04,3.766e-04:2653:1223,0,0:1430,0,0 +MT 7342 . G A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=2653;ECNT=10;MBQ=26,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.123e+00,-3.123e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2653,0,0:3.766e-04,3.766e-04:2653:1223,0,0:1430,0,0 MT 7343 . A . . END=7348 GT:DP:MIN_DP:TLOD 0/0:2435:2343:-3.384e+00 -MT 7349 . C CATAATAGTAGAAGAACCCT, . t_lod CONTQ=93;DP=2396;ECNT=10;MBQ=28,26,0;MFRL=332,346,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.750e-03;SAPP=8.783e-04,2.066e-04,0.999;TLOD=-2.547e+00,-3.067e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2282,4,0:1.027e-03,4.281e-04:2286:1039,2,0:1243,2,0 +MT 7349 . C CATAATAGTAGAAGAACCCT, . t_lod CONTQ=93;DP=2396;ECNT=10;MBQ=28,26,0;MFRL=332,346,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-2.547e+00,-3.067e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2282,4,0:1.027e-03,4.281e-04:2286:1039,2,0:1243,2,0 MT 7350 . C . . END=7352 GT:DP:MIN_DP:TLOD 0/0:2231:2196:-3.351e+00 -MT 7353 . A T, . base_quality;t_lod CONTQ=93;DP=2247;ECNT=10;MBQ=28,11,0;MFRL=332,318,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.632e-04;SAPP=4.373e-04,1.449e-04,0.999;TLOD=-3.039e+00,-3.040e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2158,1,0:4.569e-04,4.559e-04:2159:990,0,0:1168,1,0 +MT 7353 . A T, . base_quality;t_lod CONTQ=93;DP=2247;ECNT=10;MBQ=28,11,0;MFRL=332,318,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.039e+00,-3.040e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2158,1,0:4.569e-04,4.559e-04:2159:990,0,0:1168,1,0 MT 7354 . T . . END=7363 GT:DP:MIN_DP:TLOD 0/0:2204:1986:-3.357e+00 MT 7364 . A . . END=7365 GT:DP:MIN_DP:TLOD 0/0:1897:1866:-2.911e+00 MT 7366 . C . . END=7366 GT:DP:MIN_DP:TLOD 0/0:1819:1819:-1.228e+00 @@ -3645,7 +3643,7 @@ MT 8853 . A . . END=8853 GT:DP:MIN_DP:TLOD 0/0:21:21:-2.831e-01 MT 8854 . G . . END=8856 GT:DP:MIN_DP:TLOD 0/0:24:23:-1.451e+00 MT 8857 . G . . END=8858 GT:DP:MIN_DP:TLOD 0/0:33:29:0.245 MT 8859 . C . . END=8859 GT:DP:MIN_DP:TLOD 0/0:42:42:-1.641e+00 -MT 8860 . A G, . PASS CONTQ=93;DP=33;ECNT=3;MBQ=9,25,0;MFRL=362,394,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.909,0.889,0.906;SAPP=0.019,0.042,0.939;TLOD=71.64,-1.212e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3,29,0:0.917,0.030:32:3,16,0:0,13,0 +MT 8860 . A G, . PASS CONTQ=93;DP=33;ECNT=3;MBQ=9,25,0;MFRL=362,394,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=71.64,-1.212e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3,29,0:0.917,0.030:32:3,16,0:0,13,0 MT 8861 . C . . END=8861 GT:DP:MIN_DP:TLOD 0/0:27:27:-1.172e+00 MT 8862 . A . . END=8862 GT:DP:MIN_DP:TLOD 0/0:29:29:-1.501e+00 MT 8863 . G . . END=8863 GT:DP:MIN_DP:TLOD 0/0:30:30:-1.071e+00 @@ -3654,10 +3652,10 @@ MT 8866 . A . . END=8867 GT:DP:MIN_DP:TLOD 0/0:34:34:-1.436e+00 MT 8868 . T . . END=8875 GT:DP:MIN_DP:TLOD 0/0:50:49:-1.719e+00 MT 8876 . T . . END=8876 GT:DP:MIN_DP:TLOD 0/0:52:52:-1.006e+00 MT 8877 . T . . END=8881 GT:DP:MIN_DP:TLOD 0/0:52:51:-1.748e+00 -MT 8882 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=58;ECNT=3;MBQ=27,0,0;MFRL=403,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=7.438e-03,3.323e-03,0.989;TLOD=-1.468e+00,-1.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:56,0,0:0.017,0.017:56:28,0,0:28,0,0 +MT 8882 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=58;ECNT=3;MBQ=27,0,0;MFRL=403,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-1.468e+00,-1.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:56,0,0:0.017,0.017:56:28,0,0:28,0,0 MT 8883 . T . . END=8891 GT:DP:MIN_DP:TLOD 0/0:61:56:-1.799e+00 MT 8892 . A . . END=8892 GT:DP:MIN_DP:TLOD 0/0:65:65:-1.261e+00 -MT 8893 . A C, . base_quality;t_lod CONTQ=93;DP=68;ECNT=3;MBQ=28,16,0;MFRL=404,403,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.081,0.00,0.077;SAPP=4.931e-03,0.058,0.937;TLOD=0.817,-1.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:60,5,0:0.058,0.015:65:29,1,0:31,4,0 +MT 8893 . A C, . base_quality;t_lod CONTQ=93;DP=68;ECNT=3;MBQ=28,16,0;MFRL=404,403,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=0.817,-1.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:60,5,0:0.058,0.015:65:29,1,0:31,4,0 MT 8894 . A . . END=8894 GT:DP:MIN_DP:TLOD 0/0:123:123:-1.074e+00 MT 8895 . T . . END=8895 GT:DP:MIN_DP:TLOD 0/0:127:127:-2.112e+00 MT 8896 . G . . END=8896 GT:DP:MIN_DP:TLOD 0/0:123:123:-1.989e+00 @@ -3729,42 +3727,42 @@ MT 9031 . C . . END=9031 GT:DP:MIN_DP:TLOD 0/0:5908:5908:-2.846e+00 MT 9032 . T . . END=9036 GT:DP:MIN_DP:TLOD 0/0:6041:5958:-3.770e+00 MT 9037 . A . . END=9037 GT:DP:MIN_DP:TLOD 0/0:6182:6182:-3.269e+00 MT 9038 . T . . END=9040 GT:DP:MIN_DP:TLOD 0/0:6238:6208:-3.792e+00 -MT 9041 . A T, . base_quality;t_lod CONTQ=93;DP=5911;ECNT=19;MBQ=29,13,0;MFRL=334,365,0;MMQ=60,51,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.719e-04;SAPP=5.212e-05,1.673e-04,1.000;TLOD=-3.466e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5817,1,0:1.709e-04,1.707e-04:5818:2771,0,0:3046,1,0 +MT 9041 . A T, . base_quality;t_lod CONTQ=93;DP=5911;ECNT=19;MBQ=29,13,0;MFRL=334,365,0;MMQ=60,51,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.466e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5817,1,0:1.709e-04,1.707e-04:5818:2771,0,0:3046,1,0 MT 9042 . C . . END=9044 GT:DP:MIN_DP:TLOD 0/0:5955:5913:-3.776e+00 -MT 9045 . A C, . base_quality;t_lod CONTQ=93;DP=6081;ECNT=19;MBQ=29,7,0;MFRL=335,346,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.514e-03;SAPP=9.750e-05,0.070,0.930;TLOD=-3.337e+00,-3.476e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5948,39,0:2.344e-04,1.670e-04:5987:2811,24,0:3137,15,0 +MT 9045 . A C, . base_quality;t_lod CONTQ=93;DP=6081;ECNT=19;MBQ=29,7,0;MFRL=335,346,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.337e+00,-3.476e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5948,39,0:2.344e-04,1.670e-04:5987:2811,24,0:3137,15,0 MT 9046 . A . . END=9048 GT:DP:MIN_DP:TLOD 0/0:6125:6068:-3.762e+00 -MT 9049 . G A, . t_lod CONTQ=93;DP=6253;ECNT=19;MBQ=28,29,0;MFRL=336,204,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.759e-04;SAPP=9.635e-05,3.902e-04,1.000;TLOD=-2.509e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6142,6,0:5.556e-04,1.619e-04:6148:2918,4,0:3224,2,0 -MT 9050 . G T, . base_quality;t_lod CONTQ=93;DP=6298;ECNT=19;MBQ=28,12,0;MFRL=336,297,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.613e-03;SAPP=1.742e-04,2.167e-04,1.000;TLOD=-3.432e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6189,10,0:1.857e-04,1.608e-04:6199:2929,8,0:3260,2,0 +MT 9049 . G A, . t_lod CONTQ=93;DP=6253;ECNT=19;MBQ=28,29,0;MFRL=336,204,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-2.509e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6142,6,0:5.556e-04,1.619e-04:6148:2918,4,0:3224,2,0 +MT 9050 . G T, . base_quality;t_lod CONTQ=93;DP=6298;ECNT=19;MBQ=28,12,0;MFRL=336,297,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.432e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6189,10,0:1.857e-04,1.608e-04:6199:2929,8,0:3260,2,0 MT 9051 . A . . END=9051 GT:DP:MIN_DP:TLOD 0/0:6297:6297:-3.688e+00 -MT 9052 . A C, . base_quality;t_lod CONTQ=93;DP=6382;ECNT=19;MBQ=29,4,0;MFRL=336,391,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.295e-03;SAPP=1.682e-04,1.208e-03,0.999;TLOD=-3.486e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6260,27,0:1.634e-04,1.589e-04:6287:2955,18,0:3305,9,0 +MT 9052 . A C, . base_quality;t_lod CONTQ=93;DP=6382;ECNT=19;MBQ=29,4,0;MFRL=336,391,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.486e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6260,27,0:1.634e-04,1.589e-04:6287:2955,18,0:3305,9,0 MT 9053 . G . . END=9060 GT:DP:MIN_DP:TLOD 0/0:6534:6343:-3.818e+00 MT 9061 . C . . END=9061 GT:DP:MIN_DP:TLOD 0/0:6743:6743:-3.122e+00 MT 9062 . T . . END=9065 GT:DP:MIN_DP:TLOD 0/0:6737:6691:-3.813e+00 -MT 9066 . A C, . base_quality;t_lod CONTQ=93;DP=6867;ECNT=19;MBQ=29,9,0;MFRL=337,410,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.953e-04;SAPP=3.290e-04,4.834e-05,1.000;TLOD=-3.532e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6770,2,0:1.470e-04,1.468e-04:6772:3197,1,0:3573,1,0 +MT 9066 . A C, . base_quality;t_lod CONTQ=93;DP=6867;ECNT=19;MBQ=29,9,0;MFRL=337,410,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.532e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6770,2,0:1.470e-04,1.468e-04:6772:3197,1,0:3573,1,0 MT 9067 . A . . END=9067 GT:DP:MIN_DP:TLOD 0/0:6726:6726:-3.795e+00 -MT 9068 . T A, . base_quality;t_lod CONTQ=93;DP=6868;ECNT=19;MBQ=29,12,0;MFRL=336,373,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.998e-04;SAPP=1.084e-04,1.236e-04,1.000;TLOD=-3.520e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6665,4,0:1.512e-04,1.485e-04:6669:3142,2,0:3523,2,0 +MT 9068 . T A, . base_quality;t_lod CONTQ=93;DP=6868;ECNT=19;MBQ=29,12,0;MFRL=336,373,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6665,4,0:1.512e-04,1.485e-04:6669:3142,2,0:3523,2,0 MT 9069 . A . . END=9070 GT:DP:MIN_DP:TLOD 0/0:6714:6712:-3.800e+00 MT 9071 . C . . END=9071 GT:DP:MIN_DP:TLOD 0/0:6739:6739:-3.339e+00 -MT 9072 . A T, . base_quality;t_lod CONTQ=93;DP=6888;ECNT=19;MBQ=28,18,0;MFRL=335,135,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.471e-04;SAPP=4.428e-05,1.398e-04,1.000;TLOD=-3.472e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6796,1,0:1.678e-04,1.463e-04:6797:3216,1,0:3580,0,0 -MT 9073 . A C, . base_quality;t_lod CONTQ=93;DP=6846;ECNT=19;MBQ=28,7,0;MFRL=335,429,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.332e-03;SAPP=1.237e-04,9.377e-03,0.990;TLOD=-3.444e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6634,49,0:1.815e-04,1.492e-04:6683:3129,27,0:3505,22,0 +MT 9072 . A T, . base_quality;t_lod CONTQ=93;DP=6888;ECNT=19;MBQ=28,18,0;MFRL=335,135,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.472e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6796,1,0:1.678e-04,1.463e-04:6797:3216,1,0:3580,0,0 +MT 9073 . A C, . base_quality;t_lod CONTQ=93;DP=6846;ECNT=19;MBQ=28,7,0;MFRL=335,429,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.444e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6634,49,0:1.815e-04,1.492e-04:6683:3129,27,0:3505,22,0 MT 9074 . C . . END=9079 GT:DP:MIN_DP:TLOD 0/0:6627:6523:-3.825e+00 -MT 9080 . A C, . base_quality;t_lod CONTQ=93;DP=6526;ECNT=19;MBQ=28,7,0;MFRL=334,359,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.438e-03;SAPP=2.218e-05,0.747,0.253;TLOD=-3.442e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6346,54,0:1.818e-04,1.563e-04:6400:2995,29,0:3351,25,0 +MT 9080 . A C, . base_quality;t_lod CONTQ=93;DP=6526;ECNT=19;MBQ=28,7,0;MFRL=334,359,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.442e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6346,54,0:1.818e-04,1.563e-04:6400:2995,29,0:3351,25,0 MT 9081 . C . . END=9081 GT:DP:MIN_DP:TLOD 0/0:6375:6375:-3.782e+00 -MT 9082 . C T, . base_quality;t_lod CONTQ=93;DP=6425;ECNT=19;MBQ=28,13,0;MFRL=334,260,0;MMQ=60,60,0;MPOS=70,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.741e-04;SAPP=1.635e-04,8.878e-05,1.000;TLOD=-3.380e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6325,3,0:2.026e-04,1.574e-04:6328:2999,1,0:3326,2,0 +MT 9082 . C T, . base_quality;t_lod CONTQ=93;DP=6425;ECNT=19;MBQ=28,13,0;MFRL=334,260,0;MMQ=60,60,0;MPOS=70,0;POPAF=7.30,7.30;TLOD=-3.380e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6325,3,0:2.026e-04,1.574e-04:6328:2999,1,0:3326,2,0 MT 9083 . T . . END=9084 GT:DP:MIN_DP:TLOD 0/0:6302:6273:-3.703e+00 -MT 9085 . C T,A, . t_lod CONTQ=93;DP=6293;ECNT=19;MBQ=28,28,11,0;MFRL=334,439,135,0;MMQ=60,57,60,0;MPOS=49,33,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.00,1.614e-04;SAPP=4.770e-05,1.626e-04,1.000;TLOD=-3.240e+00,-3.255e+00,-3.322e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6194,1,1,0:1.902e-04,1.840e-04,1.589e-04:6196:2937,0,1,0:3257,1,0,0 -MT 9086 . C A, . base_quality;t_lod CONTQ=93;DP=6246;ECNT=19;MBQ=29,13,0;MFRL=333,419,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.00,0.010,8.122e-04;SAPP=2.164e-03,5.478e-05,0.998;TLOD=-3.155e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6151,5,0:2.982e-04,1.618e-04:6156:2917,2,0:3234,3,0 +MT 9085 . C T,A, . t_lod CONTQ=93;DP=6293;ECNT=19;MBQ=28,28,11,0;MFRL=334,439,135,0;MMQ=60,57,60,0;MPOS=49,33,0;POPAF=7.30,7.30,7.30;TLOD=-3.240e+00,-3.255e+00,-3.322e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6194,1,1,0:1.902e-04,1.840e-04,1.589e-04:6196:2937,0,1,0:3257,1,0,0 +MT 9086 . C A, . base_quality;t_lod CONTQ=93;DP=6246;ECNT=19;MBQ=29,13,0;MFRL=333,419,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.155e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6151,5,0:2.982e-04,1.618e-04:6156:2917,2,0:3234,3,0 MT 9087 . C . . END=9092 GT:DP:MIN_DP:TLOD 0/0:6045:5916:-3.777e+00 -MT 9093 . A T, . base_quality;t_lod CONTQ=93;DP=5956;ECNT=19;MBQ=28,11,0;MFRL=333,391,0;MMQ=60,60,0;MPOS=57,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.836e-04;SAPP=4.973e-05,2.216e-03,0.998;TLOD=-3.464e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5847,4,0:1.718e-04,1.701e-04:5851:2787,1,0:3060,3,0 +MT 9093 . A T, . base_quality;t_lod CONTQ=93;DP=5956;ECNT=19;MBQ=28,11,0;MFRL=333,391,0;MMQ=60,60,0;MPOS=57,0;POPAF=7.30,7.30;TLOD=-3.464e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5847,4,0:1.718e-04,1.701e-04:5851:2787,1,0:3060,3,0 MT 9094 . C . . END=9095 GT:DP:MIN_DP:TLOD 0/0:5830:5796:-3.767e+00 -MT 9096 . T C,G, . base_quality;t_lod CONTQ=93;DP=5823;ECNT=19;MBQ=29,7,8,0;MFRL=332,408,423,0;MMQ=60,60,60,0;MPOS=25,47,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,5.944e-03;SAPP=0.975,1.827e-06,0.025;TLOD=-3.177e+00,-3.254e+00,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5686,34,10,0:2.216e-04,1.858e-04,1.746e-04:5730:2706,11,4,0:2980,23,6,0 +MT 9096 . T C,G, . base_quality;t_lod CONTQ=93;DP=5823;ECNT=19;MBQ=29,7,8,0;MFRL=332,408,423,0;MMQ=60,60,60,0;MPOS=25,47,0;POPAF=7.30,7.30,7.30;TLOD=-3.177e+00,-3.254e+00,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5686,34,10,0:2.216e-04,1.858e-04,1.746e-04:5730:2706,11,4,0:2980,23,6,0 MT 9097 . A . . END=9098 GT:DP:MIN_DP:TLOD 0/0:5694:5669:-3.732e+00 -MT 9099 . C A, . base_quality;t_lod CONTQ=93;DP=5694;ECNT=19;MBQ=28,12,0;MFRL=333,348,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.426e-03;SAPP=0.016,5.995e-05,0.984;TLOD=-3.428e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5602,8,0:1.867e-04,1.775e-04:5610:2653,3,0:2949,5,0 -MT 9100 . A C, . base_quality;t_lod CONTQ=93;DP=5654;ECNT=19;MBQ=29,8,0;MFRL=332,384,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.401e-03;SAPP=1.749e-03,1.691e-04,0.998;TLOD=-3.402e+00,-3.445e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5525,30,0:1.986e-04,1.796e-04:5555:2609,15,0:2916,15,0 +MT 9099 . C A, . base_quality;t_lod CONTQ=93;DP=5694;ECNT=19;MBQ=28,12,0;MFRL=333,348,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.428e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5602,8,0:1.867e-04,1.775e-04:5610:2653,3,0:2949,5,0 +MT 9100 . A C, . base_quality;t_lod CONTQ=93;DP=5654;ECNT=19;MBQ=29,8,0;MFRL=332,384,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.402e+00,-3.445e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5525,30,0:1.986e-04,1.796e-04:5555:2609,15,0:2916,15,0 MT 9101 . T . . END=9103 GT:DP:MIN_DP:TLOD 0/0:5517:5469:-3.736e+00 -MT 9104 . T A, . base_quality;t_lod CONTQ=93;DP=5573;ECNT=19;MBQ=28,11,0;MFRL=332,464,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.824e-04;SAPP=5.311e-05,1.933e-04,1.000;TLOD=-3.441e+00,-3.441e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5482,1,0:1.812e-04,1.810e-04:5483:2588,0,0:2894,1,0 +MT 9104 . T A, . base_quality;t_lod CONTQ=93;DP=5573;ECNT=19;MBQ=28,11,0;MFRL=332,464,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.441e+00,-3.441e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5482,1,0:1.812e-04,1.810e-04:5483:2588,0,0:2894,1,0 MT 9105 . C . . END=9105 GT:DP:MIN_DP:TLOD 0/0:5433:5433:-3.687e+00 -MT 9106 . A C,T, . base_quality;t_lod CONTQ=93;DP=5574;ECNT=19;MBQ=29,8,20,0;MFRL=331,439,273,0;MMQ=60,60,54,0;MPOS=28,24,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.150e-03;SAPP=3.952e-04,2.306e-04,0.999;TLOD=-3.007e+00,-3.171e+00,-3.260e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5379,17,2,0:3.192e-04,2.220e-04,1.833e-04:5398:2543,5,1,0:2836,12,1,0 +MT 9106 . A C,T, . base_quality;t_lod CONTQ=93;DP=5574;ECNT=19;MBQ=29,8,20,0;MFRL=331,439,273,0;MMQ=60,60,54,0;MPOS=28,24,0;POPAF=7.30,7.30,7.30;TLOD=-3.007e+00,-3.171e+00,-3.260e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5379,17,2,0:3.192e-04,2.220e-04,1.833e-04:5398:2543,5,1,0:2836,12,1,0 MT 9107 . C . . END=9113 GT:DP:MIN_DP:TLOD 0/0:5841:5816:-3.761e+00 MT 9114 . A . . END=9115 GT:DP:MIN_DP:TLOD 0/0:5830:5815:-3.418e+00 MT 9116 . T . . END=9119 GT:DP:MIN_DP:TLOD 0/0:5820:5807:-3.745e+00 @@ -4242,43 +4240,43 @@ MT 10231 . T . . END=10235 GT:DP:MIN_DP:TLOD 0/0:7086:6987:-3.834e+00 MT 10236 . A . . END=10236 GT:DP:MIN_DP:TLOD 0/0:7085:7085:-2.624e+00 MT 10237 . T . . END=10237 GT:DP:MIN_DP:TLOD 0/0:7081:7081:-3.670e+00 MT 10238 . T . . END=10240 GT:DP:MIN_DP:TLOD 0/0:7085:7083:-3.470e+00 -MT 10241 . C A,T, . base_quality;t_lod CONTQ=93;DP=6625;ECNT=18;MBQ=28,19,12,0;MFRL=338,376,394,0;MMQ=60,60,60,0;MPOS=39,36,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,4.643e-04;SAPP=8.028e-05,1.814e-04,1.000;TLOD=-3.251e+00,-3.336e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6459,3,5,0:1.857e-04,1.538e-04,1.533e-04:6467:3201,1,4,0:3258,2,1,0 +MT 10241 . C A,T, . base_quality;t_lod CONTQ=93;DP=6625;ECNT=18;MBQ=28,19,12,0;MFRL=338,376,394,0;MMQ=60,60,60,0;MPOS=39,36,0;POPAF=7.30,7.30,7.30;TLOD=-3.251e+00,-3.336e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6459,3,5,0:1.857e-04,1.538e-04,1.533e-04:6467:3201,1,4,0:3258,2,1,0 MT 10242 . T . . END=10242 GT:DP:MIN_DP:TLOD 0/0:6515:6515:-3.697e+00 -MT 10243 . T G, . base_quality;t_lod CONTQ=93;DP=6639;ECNT=18;MBQ=28,7,0;MFRL=339,372,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.166e-03;SAPP=6.491e-05,0.017,0.983;TLOD=-3.498e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6449,14,0:1.590e-04,1.534e-04:6463:3195,9,0:3254,5,0 +MT 10243 . T G, . base_quality;t_lod CONTQ=93;DP=6639;ECNT=18;MBQ=28,7,0;MFRL=339,372,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.498e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6449,14,0:1.590e-04,1.534e-04:6463:3195,9,0:3254,5,0 MT 10244 . C . . END=10244 GT:DP:MIN_DP:TLOD 0/0:6514:6514:-3.715e+00 -MT 10245 . T G, . base_quality;t_lod CONTQ=93;DP=6637;ECNT=18;MBQ=29,5,0;MFRL=338,393,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.166e-03;SAPP=9.702e-05,1.505e-03,0.998;TLOD=-3.508e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6451,14,0:1.552e-04,1.533e-04:6465:3213,8,0:3238,6,0 +MT 10245 . T G, . base_quality;t_lod CONTQ=93;DP=6637;ECNT=18;MBQ=29,5,0;MFRL=338,393,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6451,14,0:1.552e-04,1.533e-04:6465:3213,8,0:3238,6,0 MT 10246 . T . . END=10246 GT:DP:MIN_DP:TLOD 0/0:6512:6512:-3.761e+00 -MT 10247 . A C, . base_quality;t_lod CONTQ=93;DP=6641;ECNT=18;MBQ=29,7,0;MFRL=338,379,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.330e-03;SAPP=3.424e-04,3.663e-04,0.999;TLOD=-3.348e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6439,28,0:2.227e-04,1.536e-04:6467:3207,16,0:3232,12,0 +MT 10247 . A C, . base_quality;t_lod CONTQ=93;DP=6641;ECNT=18;MBQ=29,7,0;MFRL=338,379,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.348e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6439,28,0:2.227e-04,1.536e-04:6467:3207,16,0:3232,12,0 MT 10248 . T . . END=10251 GT:DP:MIN_DP:TLOD 0/0:6520:6515:-3.813e+00 MT 10252 . T . . END=10252 GT:DP:MIN_DP:TLOD 0/0:6516:6516:-3.408e+00 MT 10253 . T . . END=10259 GT:DP:MIN_DP:TLOD 0/0:6505:6481:-3.808e+00 -MT 10260 . G T, . base_quality;t_lod CONTQ=93;DP=6654;ECNT=18;MBQ=28,12,0;MFRL=337,339,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.006e-03;SAPP=7.990e-04,1.068e-04,0.999;TLOD=-3.069e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,13,0:3.416e-04,1.531e-04:6482:3214,5,0:3255,8,0 +MT 10260 . G T, . base_quality;t_lod CONTQ=93;DP=6654;ECNT=18;MBQ=28,12,0;MFRL=337,339,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.069e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,13,0:3.416e-04,1.531e-04:6482:3214,5,0:3255,8,0 MT 10261 . A . . END=10262 GT:DP:MIN_DP:TLOD 0/0:6504:6500:-3.711e+00 -MT 10263 . A C,G, . base_quality;t_lod CONTQ=93;DP=6655;ECNT=18;MBQ=29,7,12,0;MFRL=336,349,403,0;MMQ=60,60,60,0;MPOS=18,34,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,4.947e-03;SAPP=1.000e-04,0.010,0.989;TLOD=-3.276e+00,-3.311e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6437,32,8,0:1.770e-04,1.630e-04,1.534e-04:6477:3189,18,4,0:3248,14,4,0 +MT 10263 . A C,G, . base_quality;t_lod CONTQ=93;DP=6655;ECNT=18;MBQ=29,7,12,0;MFRL=336,349,403,0;MMQ=60,60,60,0;MPOS=18,34,0;POPAF=7.30,7.30,7.30;TLOD=-3.276e+00,-3.311e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6437,32,8,0:1.770e-04,1.630e-04,1.534e-04:6477:3189,18,4,0:3248,14,4,0 MT 10264 . T . . END=10264 GT:DP:MIN_DP:TLOD 0/0:6489:6489:-3.809e+00 -MT 10265 . T G, . base_quality;t_lod CONTQ=93;DP=6657;ECNT=18;MBQ=29,7,0;MFRL=336,404,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.162e-03;SAPP=3.196e-04,1.879e-04,0.999;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,14,0:1.546e-04,1.530e-04:6476:3202,6,0:3260,8,0 -MT 10266 . G A,T, . base_quality;t_lod CONTQ=93;DP=6665;ECNT=18;MBQ=28,2,12,0;MFRL=336,706,367,0;MMQ=60,60,60,0;MPOS=10,30,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.010,2.933e-03;SAPP=0.956,2.232e-06,0.044;TLOD=-3.337e+00,-2.589e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6459,3,19,0:1.534e-04,4.732e-04,1.531e-04:6481:3191,2,9,0:3268,1,10,0 +MT 10265 . T G, . base_quality;t_lod CONTQ=93;DP=6657;ECNT=18;MBQ=29,7,0;MFRL=336,404,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,14,0:1.546e-04,1.530e-04:6476:3202,6,0:3260,8,0 +MT 10266 . G A,T, . base_quality;t_lod CONTQ=93;DP=6665;ECNT=18;MBQ=28,2,12,0;MFRL=336,706,367,0;MMQ=60,60,60,0;MPOS=10,30,0;POPAF=7.30,7.30,7.30;TLOD=-3.337e+00,-2.589e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6459,3,19,0:1.534e-04,4.732e-04,1.531e-04:6481:3191,2,9,0:3268,1,10,0 MT 10267 . C . . END=10268 GT:DP:MIN_DP:TLOD 0/0:6502:6480:-3.762e+00 -MT 10269 . C A, . base_quality;t_lod CONTQ=93;DP=6667;ECNT=18;MBQ=28,14,0;MFRL=336,424,0;MMQ=60,60,0;MPOS=61,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.708e-04;SAPP=9.503e-05,2.154e-04,1.000;TLOD=-3.435e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6482,5,0:1.831e-04,1.527e-04:6487:3211,1,0:3271,4,0 +MT 10269 . C A, . base_quality;t_lod CONTQ=93;DP=6667;ECNT=18;MBQ=28,14,0;MFRL=336,424,0;MMQ=60,60,0;MPOS=61,0;POPAF=7.30,7.30;TLOD=-3.435e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6482,5,0:1.831e-04,1.527e-04:6487:3211,1,0:3271,4,0 MT 10270 . T . . END=10271 GT:DP:MIN_DP:TLOD 0/0:6513:6512:-3.810e+00 MT 10272 . C . . END=10272 GT:DP:MIN_DP:TLOD 0/0:6492:6492:-3.464e+00 MT 10273 . T . . END=10282 GT:DP:MIN_DP:TLOD 0/0:6519:6451:-3.807e+00 -MT 10283 . A C, . base_quality;t_lod CONTQ=93;DP=6695;ECNT=18;MBQ=29,7,0;MFRL=336,416,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.401e-03;SAPP=3.054e-06,0.958,0.042;TLOD=-3.187e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6438,48,0:2.883e-04,1.532e-04:6486:3152,29,0:3286,19,0 +MT 10283 . A C, . base_quality;t_lod CONTQ=93;DP=6695;ECNT=18;MBQ=29,7,0;MFRL=336,416,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.187e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6438,48,0:2.883e-04,1.532e-04:6486:3152,29,0:3286,19,0 MT 10284 . C . . END=10291 GT:DP:MIN_DP:TLOD 0/0:6476:6385:-3.808e+00 -MT 10292 . C A, . base_quality;t_lod CONTQ=93;DP=6681;ECNT=18;MBQ=28,13,0;MFRL=337,408,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.217e-04;SAPP=2.650e-04,1.074e-04,1.000;TLOD=-3.515e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6504,6,0:1.529e-04,1.522e-04:6510:3200,2,0:3304,4,0 -MT 10293 . C T, . base_quality;t_lod CONTQ=93;DP=6680;ECNT=18;MBQ=28,14,0;MFRL=337,282,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.143e-04;SAPP=1.088e-03,5.157e-05,0.999;TLOD=-3.515e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6507,4,0:1.527e-04,1.523e-04:6511:3197,3,0:3310,1,0 +MT 10292 . C A, . base_quality;t_lod CONTQ=93;DP=6681;ECNT=18;MBQ=28,13,0;MFRL=337,408,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6504,6,0:1.529e-04,1.522e-04:6510:3200,2,0:3304,4,0 +MT 10293 . C T, . base_quality;t_lod CONTQ=93;DP=6680;ECNT=18;MBQ=28,14,0;MFRL=337,282,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6507,4,0:1.527e-04,1.523e-04:6511:3197,3,0:3310,1,0 MT 10294 . T . . END=10297 GT:DP:MIN_DP:TLOD 0/0:6521:6516:-3.798e+00 MT 10298 . A . . END=10298 GT:DP:MIN_DP:TLOD 0/0:6513:6513:-3.481e+00 -MT 10299 . A C, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=18;MBQ=28,8,0;MFRL=337,425,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.605e-04;SAPP=6.157e-05,6.318e-04,0.999;TLOD=-3.518e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6570,5,0:1.519e-04,1.514e-04:6575:3228,1,0:3342,4,0 +MT 10299 . A C, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=18;MBQ=28,8,0;MFRL=337,425,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.518e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6570,5,0:1.519e-04,1.514e-04:6575:3228,1,0:3342,4,0 MT 10300 . C . . END=10301 GT:DP:MIN_DP:TLOD 0/0:6481:6477:-3.808e+00 -MT 10302 . A T, . base_quality;t_lod CONTQ=93;DP=6642;ECNT=18;MBQ=28,14,0;MFRL=337,419,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.217e-04;SAPP=4.577e-05,1.898e-03,0.998;TLOD=-3.436e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6430,4,0:1.821e-04,1.540e-04:6434:3146,2,0:3284,2,0 +MT 10302 . A T, . base_quality;t_lod CONTQ=93;DP=6642;ECNT=18;MBQ=28,14,0;MFRL=337,419,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.436e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6430,4,0:1.821e-04,1.540e-04:6434:3146,2,0:3284,2,0 MT 10303 . C . . END=10304 GT:DP:MIN_DP:TLOD 0/0:6452:6448:-3.799e+00 -MT 10305 . A C, . base_quality;t_lod CONTQ=93;DP=6615;ECNT=18;MBQ=29,8,0;MFRL=337,384,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.117e-03;SAPP=9.176e-05,0.021,0.979;TLOD=-3.438e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6416,33,0:1.821e-04,1.544e-04:6449:3142,19,0:3274,14,0 +MT 10305 . A C, . base_quality;t_lod CONTQ=93;DP=6615;ECNT=18;MBQ=29,8,0;MFRL=337,384,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.438e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6416,33,0:1.821e-04,1.544e-04:6449:3142,19,0:3274,14,0 MT 10306 . A . . END=10318 GT:DP:MIN_DP:TLOD 0/0:6450:6369:-3.806e+00 -MT 10319 . A C, . base_quality;t_lod CONTQ=93;DP=6569;ECNT=18;MBQ=29,7,0;MFRL=337,449,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.501e-03;SAPP=4.862e-04,1.745e-04,0.999;TLOD=-3.497e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6382,16,0:1.594e-04,1.551e-04:6398:3095,6,0:3287,10,0 -MT 10320 . G T, . base_quality;t_lod CONTQ=93;DP=6570;ECNT=18;MBQ=28,6,0;MFRL=338,329,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.565e-03;SAPP=5.016e-03,6.464e-05,0.995;TLOD=-3.505e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6381,10,0:1.563e-04,1.552e-04:6391:3091,4,0:3290,6,0 +MT 10319 . A C, . base_quality;t_lod CONTQ=93;DP=6569;ECNT=18;MBQ=29,7,0;MFRL=337,449,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6382,16,0:1.594e-04,1.551e-04:6398:3095,6,0:3287,10,0 +MT 10320 . G T, . base_quality;t_lod CONTQ=93;DP=6570;ECNT=18;MBQ=28,6,0;MFRL=338,329,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6381,10,0:1.563e-04,1.552e-04:6391:3091,4,0:3290,6,0 MT 10321 . T . . END=10324 GT:DP:MIN_DP:TLOD 0/0:6429:6428:-3.797e+00 -MT 10325 . G T, . base_quality;t_lod CONTQ=93;DP=6554;ECNT=18;MBQ=28,11,0;MFRL=338,389,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.822e-03;SAPP=0.276,4.393e-05,0.724;TLOD=-3.364e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6361,18,0:2.139e-04,1.555e-04:6379:3057,10,0:3304,8,0 +MT 10325 . G T, . base_quality;t_lod CONTQ=93;DP=6554;ECNT=18;MBQ=28,11,0;MFRL=338,389,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.364e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6361,18,0:2.139e-04,1.555e-04:6379:3057,10,0:3304,8,0 MT 10326 . T . . END=10332 GT:DP:MIN_DP:TLOD 0/0:7149:7125:-3.834e+00 MT 10333 . T . . END=10333 GT:DP:MIN_DP:TLOD 0/0:7146:7146:-3.217e+00 MT 10334 . C . . END=10351 GT:DP:MIN_DP:TLOD 0/0:7124:7093:-3.813e+00 @@ -4471,50 +4469,50 @@ MT 10892 . A . . END=10897 GT:DP:MIN_DP:TLOD 0/0:7097:7089:-3.832e+00 MT 10898 . A . . END=10898 GT:DP:MIN_DP:TLOD 0/0:7110:7110:-2.766e+00 MT 10899 . A . . END=10900 GT:DP:MIN_DP:TLOD 0/0:7061:7050:-3.805e+00 MT 10901 . A . . END=10901 GT:DP:MIN_DP:TLOD 0/0:7077:7077:-3.146e+00 -MT 10902 . A C,T, . base_quality;t_lod CONTQ=93;DP=4540;ECNT=18;MBQ=28,7,12,0;MFRL=331,403,372,0;MMQ=60,60,60,0;MPOS=35,24,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=4.940e-07,0.997,3.481e-03;TLOD=-2.969e+00,-3.090e+00,-3.165e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4297,59,8,0:3.724e-04,2.700e-04,2.282e-04:4364:2072,42,5,0:2225,17,3,0 +MT 10902 . A C,T, . base_quality;t_lod CONTQ=93;DP=4540;ECNT=18;MBQ=28,7,12,0;MFRL=331,403,372,0;MMQ=60,60,60,0;MPOS=35,24,0;POPAF=7.30,7.30,7.30;TLOD=-2.969e+00,-3.090e+00,-3.165e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4297,59,8,0:3.724e-04,2.700e-04,2.282e-04:4364:2072,42,5,0:2225,17,3,0 MT 10903 . C . . END=10903 GT:DP:MIN_DP:TLOD 0/0:4397:4397:-3.638e+00 -MT 10904 . C A,T, . base_quality;t_lod CONTQ=93;DP=4518;ECNT=18;MBQ=28,11,0,0;MFRL=332,407,0,0;MMQ=60,60,0,0;MPOS=32,0,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.849e-04;SAPP=2.732e-04,1.260e-04,1.000;TLOD=-3.058e+00,-3.169e+00,-3.169e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4377,3,0,0:2.855e-04,2.256e-04,2.256e-04:4380:2119,0,0,0:2258,3,0,0 +MT 10904 . C A,T, . base_quality;t_lod CONTQ=93;DP=4518;ECNT=18;MBQ=28,11,0,0;MFRL=332,407,0,0;MMQ=60,60,0,0;MPOS=32,0,0;POPAF=7.30,7.30,7.30;TLOD=-3.058e+00,-3.169e+00,-3.169e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4377,3,0,0:2.855e-04,2.256e-04,2.256e-04:4380:2119,0,0,0:2258,3,0,0 MT 10905 . T . . END=10910 GT:DP:MIN_DP:TLOD 0/0:4297:4265:-3.631e+00 -MT 10911 . G T, . base_quality;t_lod CONTQ=93;DP=4406;ECNT=18;MBQ=28,13,0;MFRL=332,253,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.647e-03;SAPP=9.561e-03,7.520e-05,0.990;TLOD=-3.329e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4243,7,0:2.345e-04,2.325e-04:4250:2004,1,0:2239,6,0 +MT 10911 . G T, . base_quality;t_lod CONTQ=93;DP=4406;ECNT=18;MBQ=28,13,0;MFRL=332,253,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.329e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4243,7,0:2.345e-04,2.325e-04:4250:2004,1,0:2239,6,0 MT 10912 . C . . END=10913 GT:DP:MIN_DP:TLOD 0/0:4246:4238:-3.631e+00 -MT 10914 . G T, . base_quality;t_lod CONTQ=93;DP=4360;ECNT=18;MBQ=27,2,0;MFRL=331,357,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.00,0.010,7.082e-04;SAPP=7.684e-03,5.152e-05,0.992;TLOD=-3.300e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4233,3,0:2.504e-04,2.343e-04:4236:1981,3,0:2252,0,0 +MT 10914 . G T, . base_quality;t_lod CONTQ=93;DP=4360;ECNT=18;MBQ=27,2,0;MFRL=331,357,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-3.300e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4233,3,0:2.504e-04,2.343e-04:4236:1981,3,0:2252,0,0 MT 10915 . T . . END=10917 GT:DP:MIN_DP:TLOD 0/0:4189:4171:-3.617e+00 MT 10918 . C . . END=10918 GT:DP:MIN_DP:TLOD 0/0:4235:4235:-3.148e+00 MT 10919 . C . . END=10921 GT:DP:MIN_DP:TLOD 0/0:4219:4204:-3.624e+00 -MT 10922 . A C,T, . base_quality;t_lod CONTQ=93;DP=4360;ECNT=18;MBQ=28,7,20,0;MFRL=331,408,381,0;MMQ=60,60,60,0;MPOS=16,28,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=5.399e-04,9.654e-04,0.998;TLOD=-3.010e+00,-3.039e+00,-3.150e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4169,47,3,0:3.332e-04,3.021e-04,2.360e-04:4219:1917,24,1,0:2252,23,2,0 +MT 10922 . A C,T, . base_quality;t_lod CONTQ=93;DP=4360;ECNT=18;MBQ=28,7,20,0;MFRL=331,408,381,0;MMQ=60,60,60,0;MPOS=16,28,0;POPAF=7.30,7.30,7.30;TLOD=-3.010e+00,-3.039e+00,-3.150e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4169,47,3,0:3.332e-04,3.021e-04,2.360e-04:4219:1917,24,1,0:2252,23,2,0 MT 10923 . C . . END=10926 GT:DP:MIN_DP:TLOD 0/0:4158:4127:-3.624e+00 MT 10927 . T . . END=10927 GT:DP:MIN_DP:TLOD 0/0:4117:4117:-3.411e+00 MT 10928 . T . . END=10930 GT:DP:MIN_DP:TLOD 0/0:4159:4097:-3.625e+00 MT 10931 . T . . END=10931 GT:DP:MIN_DP:TLOD 0/0:4128:4128:-3.453e+00 MT 10932 . C . . END=10933 GT:DP:MIN_DP:TLOD 0/0:4111:4080:-3.621e+00 -MT 10934 . G A,T, . base_quality;t_lod CONTQ=93;DP=4417;ECNT=18;MBQ=24,13,10,0;MFRL=331,288,349,0;MMQ=60,60,60,0;MPOS=11,26,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.365e-03;SAPP=0.025,8.076e-05,0.975;TLOD=-2.991e+00,-3.143e+00,-3.154e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4219,10,5,0:3.329e-04,2.398e-04,2.340e-04:4234:1899,0,3,0:2320,10,2,0 -MT 10935 . A C,T, . base_quality;t_lod CONTQ=93;DP=4411;ECNT=18;MBQ=26,3,2,0;MFRL=330,342,328,0;MMQ=60,60,60,0;MPOS=10,8,0;POPAF=7.30,7.30,7.30;SAAF=0.020,0.030,0.032;SAPP=1.000,8.343e-09,5.283e-05;TLOD=-2.828e+00,-3.136e+00,-3.143e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4055,135,12,0:5.205e-04,2.440e-04,2.400e-04:4202:1770,83,9,0:2285,52,3,0 +MT 10934 . G A,T, . base_quality;t_lod CONTQ=93;DP=4417;ECNT=18;MBQ=24,13,10,0;MFRL=331,288,349,0;MMQ=60,60,60,0;MPOS=11,26,0;POPAF=7.30,7.30,7.30;TLOD=-2.991e+00,-3.143e+00,-3.154e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4219,10,5,0:3.329e-04,2.398e-04,2.340e-04:4234:1899,0,3,0:2320,10,2,0 +MT 10935 . A C,T, . base_quality;t_lod CONTQ=93;DP=4411;ECNT=18;MBQ=26,3,2,0;MFRL=330,342,328,0;MMQ=60,60,60,0;MPOS=10,8,0;POPAF=7.30,7.30,7.30;TLOD=-2.828e+00,-3.136e+00,-3.143e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4055,135,12,0:5.205e-04,2.440e-04,2.400e-04:4202:1770,83,9,0:2285,52,3,0 MT 10936 . C . . END=10936 GT:DP:MIN_DP:TLOD 0/0:3989:3989:-3.598e+00 MT 10937 . C . . END=10937 GT:DP:MIN_DP:TLOD 0/0:4031:4031:-3.454e+00 MT 10938 . C . . END=10938 GT:DP:MIN_DP:TLOD 0/0:4039:4039:-3.582e+00 MT 10939 . C . . END=10939 GT:DP:MIN_DP:TLOD 0/0:4063:4063:-3.395e+00 MT 10940 . C . . END=10941 GT:DP:MIN_DP:TLOD 0/0:4041:4015:-3.620e+00 MT 10942 . A . . END=10944 GT:DP:MIN_DP:TLOD 0/0:4031:4025:-3.490e+00 -MT 10945 . A C, . base_quality;t_lod CONTQ=93;DP=4437;ECNT=18;MBQ=27,7,0;MFRL=330,344,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.015;SAPP=0.987,1.644e-06,0.013;TLOD=-3.268e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4213,62,0:2.725e-04,2.341e-04:4275:1838,30,0:2375,32,0 -MT 10946 . A C, . base_quality;t_lod CONTQ=93;DP=4443;ECNT=18;MBQ=25,5,0;MFRL=329,348,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.030,0.020,0.035;SAPP=3.335e-07,0.998,1.594e-03;TLOD=-2.596e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4087,149,0:9.178e-04,2.397e-04:4236:1776,62,0:2311,87,0 +MT 10945 . A C, . base_quality;t_lod CONTQ=93;DP=4437;ECNT=18;MBQ=27,7,0;MFRL=330,344,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.268e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4213,62,0:2.725e-04,2.341e-04:4275:1838,30,0:2375,32,0 +MT 10946 . A C, . base_quality;t_lod CONTQ=93;DP=4443;ECNT=18;MBQ=25,5,0;MFRL=329,348,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-2.596e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4087,149,0:9.178e-04,2.397e-04:4236:1776,62,0:2311,87,0 MT 10947 . C . . END=10947 GT:DP:MIN_DP:TLOD 0/0:4068:4068:-3.601e+00 -MT 10948 . C A, . base_quality;t_lod CONTQ=93;DP=4449;ECNT=18;MBQ=28,13,0;MFRL=331,293,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.625e-03;SAPP=0.418,3.058e-05,0.582;TLOD=-3.026e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4300,7,0:4.016e-04,2.298e-04:4307:1867,2,0:2433,5,0 +MT 10948 . C A, . base_quality;t_lod CONTQ=93;DP=4449;ECNT=18;MBQ=28,13,0;MFRL=331,293,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.026e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4300,7,0:4.016e-04,2.298e-04:4307:1867,2,0:2433,5,0 MT 10949 . C . . END=10949 GT:DP:MIN_DP:TLOD 0/0:4153:4153:-3.622e+00 MT 10950 . C . . END=10950 GT:DP:MIN_DP:TLOD 0/0:4174:4174:-3.419e+00 MT 10951 . C . . END=10952 GT:DP:MIN_DP:TLOD 0/0:4171:4167:-3.622e+00 -MT 10953 . T C, . base_quality;t_lod CONTQ=93;DP=4441;ECNT=18;MBQ=27,3,0;MFRL=332,336,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.021;SAPP=1.00,0.00,0.00;TLOD=-3.214e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4186,88,0:3.135e-04,2.342e-04:4274:1786,49,0:2400,39,0 +MT 10953 . T C, . base_quality;t_lod CONTQ=93;DP=4441;ECNT=18;MBQ=27,3,0;MFRL=332,336,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.214e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4186,88,0:3.135e-04,2.342e-04:4274:1786,49,0:2400,39,0 MT 10954 . C . . END=10955 GT:DP:MIN_DP:TLOD 0/0:4187:4180:-3.624e+00 MT 10956 . T . . END=10957 GT:DP:MIN_DP:TLOD 0/0:4180:4177:-3.463e+00 MT 10958 . A . . END=10958 GT:DP:MIN_DP:TLOD 0/0:4161:4161:-3.573e+00 -MT 10959 . T G, . base_quality;t_lod CONTQ=93;DP=4450;ECNT=18;MBQ=28,8,0;MFRL=331,411,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.853e-03;SAPP=4.411e-04,1.903e-04,0.999;TLOD=-3.245e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4309,8,0:2.814e-04,2.297e-04:4317:1834,4,0:2475,4,0 -MT 10960 . A C, . base_quality;t_lod CONTQ=93;DP=4451;ECNT=18;MBQ=28,7,0;MFRL=331,327,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.313e-03;SAPP=0.955,4.661e-06,0.045;TLOD=-3.140e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4255,40,0:3.482e-04,2.315e-04:4295:1804,21,0:2451,19,0 +MT 10959 . T G, . base_quality;t_lod CONTQ=93;DP=4450;ECNT=18;MBQ=28,8,0;MFRL=331,411,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.245e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4309,8,0:2.814e-04,2.297e-04:4317:1834,4,0:2475,4,0 +MT 10960 . A C, . base_quality;t_lod CONTQ=93;DP=4451;ECNT=18;MBQ=28,7,0;MFRL=331,327,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.140e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4255,40,0:3.482e-04,2.315e-04:4295:1804,21,0:2451,19,0 MT 10961 . C . . END=10962 GT:DP:MIN_DP:TLOD 0/0:4236:4219:-3.623e+00 -MT 10963 . A C, . base_quality;t_lod CONTQ=93;DP=4479;ECNT=18;MBQ=28,7,0;MFRL=332,347,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.584e-03;SAPP=0.039,1.360e-04,0.960;TLOD=-3.309e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4318,33,0:2.457e-04,2.290e-04:4351:1823,16,0:2495,17,0 +MT 10963 . A C, . base_quality;t_lod CONTQ=93;DP=4479;ECNT=18;MBQ=28,7,0;MFRL=332,347,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.309e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4318,33,0:2.457e-04,2.290e-04:4351:1823,16,0:2495,17,0 MT 10964 . A . . END=10965 GT:DP:MIN_DP:TLOD 0/0:4289:4265:-3.640e+00 -MT 10966 . T C, . base_quality;t_lod CONTQ=93;DP=4515;ECNT=18;MBQ=28,8,0;MFRL=331,295,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.684e-03;SAPP=0.414,5.558e-05,0.586;TLOD=-3.161e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4373,25,0:3.318e-04,2.264e-04:4398:1854,8,0:2519,17,0 +MT 10966 . T C, . base_quality;t_lod CONTQ=93;DP=4515;ECNT=18;MBQ=28,8,0;MFRL=331,295,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.161e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4373,25,0:3.318e-04,2.264e-04:4398:1854,8,0:2519,17,0 MT 10967 . A . . END=10970 GT:DP:MIN_DP:TLOD 0/0:4370:4334:-3.634e+00 -MT 10971 . G T, . base_quality;t_lod CONTQ=93;DP=4576;ECNT=18;MBQ=27,12,0;MFRL=331,311,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.486e-03;SAPP=0.555,2.712e-05,0.445;TLOD=-3.330e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4414,11,0:2.341e-04,2.245e-04:4425:1868,5,0:2546,6,0 -MT 10972 . A C,T, . base_quality;t_lod CONTQ=93;DP=4583;ECNT=18;MBQ=27,7,12,0;MFRL=330,359,391,0;MMQ=60,60,60,0;MPOS=41,23,0;POPAF=7.30,7.30,7.30;SAAF=0.020,0.030,0.028;SAPP=0.427,1.274e-04,0.573;TLOD=-2.565e+00,-3.163e+00,-3.166e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4291,125,6,0:8.913e-04,2.290e-04,2.278e-04:4422:1804,60,2,0:2487,65,4,0 +MT 10971 . G T, . base_quality;t_lod CONTQ=93;DP=4576;ECNT=18;MBQ=27,12,0;MFRL=331,311,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.330e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4414,11,0:2.341e-04,2.245e-04:4425:1868,5,0:2546,6,0 +MT 10972 . A C,T, . base_quality;t_lod CONTQ=93;DP=4583;ECNT=18;MBQ=27,7,12,0;MFRL=330,359,391,0;MMQ=60,60,60,0;MPOS=41,23,0;POPAF=7.30,7.30,7.30;TLOD=-2.565e+00,-3.163e+00,-3.166e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4291,125,6,0:8.913e-04,2.290e-04,2.278e-04:4422:1804,60,2,0:2487,65,4,0 MT 10973 . C . . END=10973 GT:DP:MIN_DP:TLOD 0/0:4366:4366:-3.641e+00 MT 10974 . T . . END=10974 GT:DP:MIN_DP:TLOD 0/0:4418:4418:-3.213e+00 MT 10975 . C . . END=10975 GT:DP:MIN_DP:TLOD 0/0:4449:4449:-3.605e+00 @@ -4522,7 +4520,7 @@ MT 10976 . C . . END=10976 GT:DP:MIN_DP:TLOD 0/0:4486:4486:-3.128e+00 MT 10977 . T . . END=10977 GT:DP:MIN_DP:TLOD 0/0:4489:4489:-3.639e+00 MT 10978 . A . . END=10978 GT:DP:MIN_DP:TLOD 0/0:4465:4465:-3.428e+00 MT 10979 . C . . END=10979 GT:DP:MIN_DP:TLOD 0/0:4488:4488:-3.653e+00 -MT 10980 . C A, . base_quality;t_lod CONTQ=93;DP=4674;ECNT=18;MBQ=28,12,0;MFRL=332,352,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.596e-04;SAPP=1.790e-04,1.522e-04,1.000;TLOD=-3.360e+00,-3.361e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4545,3,0:2.182e-04,2.176e-04:4548:1902,2,0:2643,1,0 +MT 10980 . C A, . base_quality;t_lod CONTQ=93;DP=4674;ECNT=18;MBQ=28,12,0;MFRL=332,352,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.360e+00,-3.361e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4545,3,0:2.182e-04,2.176e-04:4548:1902,2,0:2643,1,0 MT 10981 . C . . END=10981 GT:DP:MIN_DP:TLOD 0/0:5956:5956:-3.487e+00 MT 10982 . C . . END=10982 GT:DP:MIN_DP:TLOD 0/0:5969:5969:-3.619e+00 MT 10983 . T . . END=10983 GT:DP:MIN_DP:TLOD 0/0:5690:5690:-3.299e-01 @@ -5393,30 +5391,30 @@ MT 13268 . G . . END=13268 GT:DP:MIN_DP:TLOD 0/0:7074:7074:-3.317e+00 MT 13269 . A . . END=13274 GT:DP:MIN_DP:TLOD 0/0:7151:7093:-3.807e+00 MT 13275 . A . . END=13275 GT:DP:MIN_DP:TLOD 0/0:7178:7178:-3.287e+00 MT 13276 . A . . END=13288 GT:DP:MIN_DP:TLOD 0/0:7165:7072:-3.821e+00 -MT 13289 . G T, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=13;MBQ=28,13,0;MFRL=343,289,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.125e-04;SAPP=3.863e-04,8.577e-05,1.000;TLOD=-3.474e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6569,6,0:1.677e-04,1.506e-04:6575:3207,3,0:3362,3,0 +MT 13289 . G T, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=13;MBQ=28,13,0;MFRL=343,289,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.474e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6569,6,0:1.677e-04,1.506e-04:6575:3207,3,0:3362,3,0 MT 13290 . C . . END=13295 GT:DP:MIN_DP:TLOD 0/0:6646:6634:-3.807e+00 -MT 13296 . C A, . base_quality;t_lod CONTQ=93;DP=6768;ECNT=13;MBQ=28,15,0;MFRL=343,406,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.079e-04;SAPP=5.076e-05,1.099e-03,0.999;TLOD=-3.429e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6576,4,0:1.839e-04,1.504e-04:6580:3225,1,0:3351,3,0 +MT 13296 . C A, . base_quality;t_lod CONTQ=93;DP=6768;ECNT=13;MBQ=28,15,0;MFRL=343,406,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.429e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6576,4,0:1.839e-04,1.504e-04:6580:3225,1,0:3351,3,0 MT 13297 . C . . END=13298 GT:DP:MIN_DP:TLOD 0/0:6669:6668:-3.794e+00 -MT 13299 . A C, . base_quality;t_lod CONTQ=93;DP=6779;ECNT=13;MBQ=28,7,0;MFRL=343,346,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.309e-03;SAPP=8.562e-05,0.046,0.954;TLOD=-3.510e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6558,35,0:1.545e-04,1.507e-04:6593:3205,24,0:3353,11,0 +MT 13299 . A C, . base_quality;t_lod CONTQ=93;DP=6779;ECNT=13;MBQ=28,7,0;MFRL=343,346,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6558,35,0:1.545e-04,1.507e-04:6593:3205,24,0:3353,11,0 MT 13300 . C . . END=13300 GT:DP:MIN_DP:TLOD 0/0:6643:6643:-3.723e+00 -MT 13301 . C A, . base_quality;t_lod CONTQ=93;DP=6773;ECNT=13;MBQ=28,13,0;MFRL=343,278,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.572e-04;SAPP=1.110e-04,1.636e-04,1.000;TLOD=-3.367e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6598,5,0:2.115e-04,1.501e-04:6603:3220,5,0:3378,0,0 +MT 13301 . C A, . base_quality;t_lod CONTQ=93;DP=6773;ECNT=13;MBQ=28,13,0;MFRL=343,278,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.367e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6598,5,0:2.115e-04,1.501e-04:6603:3220,5,0:3378,0,0 MT 13302 . A . . END=13303 GT:DP:MIN_DP:TLOD 0/0:6634:6632:-3.822e+00 -MT 13304 . A C, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=13;MBQ=28,7,0;MFRL=343,366,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=3.784e-16,1.000,6.900e-12;TLOD=-3.183e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6506,70,0:3.299e-04,1.518e-04:6576:3174,34,0:3332,36,0 +MT 13304 . A C, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=13;MBQ=28,7,0;MFRL=343,366,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.183e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6506,70,0:3.299e-04,1.518e-04:6576:3174,34,0:3332,36,0 MT 13305 . C . . END=13310 GT:DP:MIN_DP:TLOD 0/0:6633:6585:-3.818e+00 -MT 13311 . A C, . base_quality;t_lod CONTQ=93;DP=6769;ECNT=13;MBQ=29,7,0;MFRL=342,421,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.945e-03;SAPP=1.028e-04,6.365e-03,0.994;TLOD=-3.324e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6565,26,0:2.403e-04,1.506e-04:6591:3210,10,0:3355,16,0 +MT 13311 . A C, . base_quality;t_lod CONTQ=93;DP=6769;ECNT=13;MBQ=29,7,0;MFRL=342,421,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.324e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6565,26,0:2.403e-04,1.506e-04:6591:3210,10,0:3355,16,0 MT 13312 . T . . END=13312 GT:DP:MIN_DP:TLOD 0/0:6618:6618:-3.630e+00 -MT 13313 . T G, . base_quality;t_lod CONTQ=93;DP=6775;ECNT=13;MBQ=28,5,0;MFRL=343,336,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.649e-03;SAPP=1.944e-04,4.928e-04,0.999;TLOD=-3.495e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6553,24,0:1.602e-04,1.509e-04:6577:3197,14,0:3356,10,0 +MT 13313 . T G, . base_quality;t_lod CONTQ=93;DP=6775;ECNT=13;MBQ=28,5,0;MFRL=343,336,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6553,24,0:1.602e-04,1.509e-04:6577:3197,14,0:3356,10,0 MT 13314 . C . . END=13325 GT:DP:MIN_DP:TLOD 0/0:6655:6625:-3.809e+00 -MT 13326 . T C, . PASS CONTQ=93;DP=6827;ECNT=13;MBQ=27,29,0;MFRL=300,342,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.998;SAPP=0.037,0.019,0.944;TLOD=21618.17,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:11,6649,0:0.999,1.489e-04:6660:5,3191,0:6,3458,0 +MT 13326 . T C, . PASS CONTQ=93;DP=6827;ECNT=13;MBQ=27,29,0;MFRL=300,342,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=21618.17,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:11,6649,0:0.999,1.489e-04:6660:5,3191,0:6,3458,0 MT 13327 . A . . END=13335 GT:DP:MIN_DP:TLOD 0/0:6656:6515:-3.823e+00 -MT 13336 . T C, . base_quality;t_lod CONTQ=93;DP=6792;ECNT=13;MBQ=29,5,0;MFRL=342,393,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.177e-03;SAPP=2.053e-03,1.011e-04,0.998;TLOD=-3.331e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,21,0:2.348e-04,1.501e-04:6611:3136,6,0:3454,15,0 +MT 13336 . T C, . base_quality;t_lod CONTQ=93;DP=6792;ECNT=13;MBQ=29,5,0;MFRL=342,393,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.331e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,21,0:2.348e-04,1.501e-04:6611:3136,6,0:3454,15,0 MT 13337 . T . . END=13348 GT:DP:MIN_DP:TLOD 0/0:6634:6583:-3.818e+00 -MT 13349 . T G, . base_quality;t_lod CONTQ=93;DP=6747;ECNT=13;MBQ=29,8,0;MFRL=341,395,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.370e-03;SAPP=5.603e-04,9.562e-05,0.999;TLOD=-3.518e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6562,9,0:1.518e-04,1.509e-04:6571:3098,4,0:3464,5,0 +MT 13349 . T G, . base_quality;t_lod CONTQ=93;DP=6747;ECNT=13;MBQ=29,8,0;MFRL=341,395,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.518e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6562,9,0:1.518e-04,1.509e-04:6571:3098,4,0:3464,5,0 MT 13350 . A . . END=13354 GT:DP:MIN_DP:TLOD 0/0:6602:6592:-3.814e+00 -MT 13355 . T G, . base_quality;t_lod CONTQ=93;DP=6737;ECNT=13;MBQ=29,7,0;MFRL=341,342,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.288e-03;SAPP=9.495e-05,2.004e-03,0.998;TLOD=-3.411e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6542,15,0:1.940e-04,1.513e-04:6557:3084,8,0:3458,7,0 -MT 13356 . T A, . base_quality;t_lod CONTQ=93;DP=6733;ECNT=13;MBQ=29,18,0;MFRL=341,299,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.053e-04;SAPP=1.080e-04,1.030e-04,1.000;TLOD=-3.519e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6549,2,0:1.514e-04,1.512e-04:6551:3096,1,0:3453,1,0 +MT 13355 . T G, . base_quality;t_lod CONTQ=93;DP=6737;ECNT=13;MBQ=29,7,0;MFRL=341,342,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.411e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6542,15,0:1.940e-04,1.513e-04:6557:3084,8,0:3458,7,0 +MT 13356 . T A, . base_quality;t_lod CONTQ=93;DP=6733;ECNT=13;MBQ=29,18,0;MFRL=341,299,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.519e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6549,2,0:1.514e-04,1.512e-04:6551:3096,1,0:3453,1,0 MT 13357 . A . . END=13360 GT:DP:MIN_DP:TLOD 0/0:6610:6605:-3.818e+00 -MT 13361 . G T, . base_quality;t_lod CONTQ=93;DP=6719;ECNT=13;MBQ=28,12,0;MFRL=340,417,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.530e-03;SAPP=0.010,5.609e-05,0.990;TLOD=-3.378e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6526,10,0:2.095e-04,1.517e-04:6536:3091,4,0:3435,6,0 +MT 13361 . G T, . base_quality;t_lod CONTQ=93;DP=6719;ECNT=13;MBQ=28,12,0;MFRL=340,417,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.378e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6526,10,0:2.095e-04,1.517e-04:6536:3091,4,0:3435,6,0 MT 13362 . C . . END=13365 GT:DP:MIN_DP:TLOD 0/0:7142:7084:-3.809e+00 MT 13366 . G . . END=13367 GT:DP:MIN_DP:TLOD 0/0:6995:6924:-3.425e+00 MT 13368 . G . . END=13374 GT:DP:MIN_DP:TLOD 0/0:7154:6989:-3.820e+00 @@ -5514,36 +5512,36 @@ MT 13642 . C . . END=13644 GT:DP:MIN_DP:TLOD 0/0:7119:7005:-3.823e+00 MT 13645 . T . . END=13646 GT:DP:MIN_DP:TLOD 0/0:7155:7143:-3.398e+00 MT 13647 . C . . END=13649 GT:DP:MIN_DP:TLOD 0/0:7199:7158:-3.776e+00 MT 13650 . C . . END=13650 GT:DP:MIN_DP:TLOD 0/0:7252:7252:-3.433e+00 -MT 13651 . A C,T, . base_quality;t_lod CONTQ=93;DP=6562;ECNT=17;MBQ=28,7,12,0;MFRL=337,361,345,0;MMQ=60,60,60,0;MPOS=26,36,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=1.010e-04,0.234,0.766;TLOD=-2.598e+00,-3.327e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6276,91,3,0:7.281e-04,1.570e-04,1.567e-04:6370:3010,49,2,0:3266,42,1,0 +MT 13651 . A C,T, . base_quality;t_lod CONTQ=93;DP=6562;ECNT=17;MBQ=28,7,12,0;MFRL=337,361,345,0;MMQ=60,60,60,0;MPOS=26,36,0;POPAF=7.30,7.30,7.30;TLOD=-2.598e+00,-3.327e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6276,91,3,0:7.281e-04,1.570e-04,1.567e-04:6370:3010,49,2,0:3266,42,1,0 MT 13652 . C . . END=13660 GT:DP:MIN_DP:TLOD 0/0:6467:6452:-3.810e+00 -MT 13661 . A C, . base_quality;t_lod CONTQ=93;DP=6603;ECNT=17;MBQ=28,7,0;MFRL=337,342,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.534e-03;SAPP=9.682e-05,0.015,0.984;TLOD=-3.468e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6367,29,0:1.708e-04,1.551e-04:6396:3017,21,0:3350,8,0 +MT 13661 . A C, . base_quality;t_lod CONTQ=93;DP=6603;ECNT=17;MBQ=28,7,0;MFRL=337,342,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.468e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6367,29,0:1.708e-04,1.551e-04:6396:3017,21,0:3350,8,0 MT 13662 . C . . END=13665 GT:DP:MIN_DP:TLOD 0/0:6456:6451:-3.810e+00 -MT 13666 . A C, . base_quality;t_lod CONTQ=93;DP=6601;ECNT=17;MBQ=29,9,0;MFRL=336,387,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.049e-03;SAPP=2.330e-04,5.423e-04,0.999;TLOD=-3.480e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6396,26,0:1.660e-04,1.547e-04:6422:3048,15,0:3348,11,0 -MT 13667 . A G, . base_quality;t_lod CONTQ=93;DP=6605;ECNT=17;MBQ=28,6,0;MFRL=336,332,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.874e-03;SAPP=7.166e-05,4.075e-03,0.996;TLOD=-3.506e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,12,0:1.560e-04,1.547e-04:6403:3043,9,0:3348,3,0 +MT 13666 . A C, . base_quality;t_lod CONTQ=93;DP=6601;ECNT=17;MBQ=29,9,0;MFRL=336,387,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6396,26,0:1.660e-04,1.547e-04:6422:3048,15,0:3348,11,0 +MT 13667 . A G, . base_quality;t_lod CONTQ=93;DP=6605;ECNT=17;MBQ=28,6,0;MFRL=336,332,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,12,0:1.560e-04,1.547e-04:6403:3043,9,0:3348,3,0 MT 13668 . C . . END=13670 GT:DP:MIN_DP:TLOD 0/0:6454:6414:-3.743e+00 -MT 13671 . A C, . base_quality;t_lod CONTQ=93;DP=6610;ECNT=17;MBQ=28,7,0;MFRL=336,328,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.576e-03;SAPP=9.504e-05,6.002e-03,0.994;TLOD=-3.443e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6408,23,0:1.801e-04,1.543e-04:6431:3052,11,0:3356,12,0 +MT 13671 . A C, . base_quality;t_lod CONTQ=93;DP=6610;ECNT=17;MBQ=28,7,0;MFRL=336,328,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.443e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6408,23,0:1.801e-04,1.543e-04:6431:3052,11,0:3356,12,0 MT 13672 . A . . END=13673 GT:DP:MIN_DP:TLOD 0/0:6471:6469:-3.773e+00 -MT 13674 . T A,G, . base_quality;t_lod CONTQ=93;DP=6621;ECNT=17;MBQ=29,11,8,0;MFRL=336,406,401,0;MMQ=60,60,60,0;MPOS=18,23,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.489e-03;SAPP=4.512e-04,1.809e-04,0.999;TLOD=-3.309e+00,-3.170e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6411,9,16,0:1.638e-04,2.235e-04,1.543e-04:6436:3051,5,8,0:3360,4,8,0 -MT 13675 . A C, . base_quality;t_lod CONTQ=93;DP=6631;ECNT=17;MBQ=29,9,0;MFRL=337,362,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.860e-03;SAPP=1.069e-04,6.126e-04,0.999;TLOD=-3.492e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6440,12,0:1.613e-04,1.537e-04:6452:3061,7,0:3379,5,0 +MT 13674 . T A,G, . base_quality;t_lod CONTQ=93;DP=6621;ECNT=17;MBQ=29,11,8,0;MFRL=336,406,401,0;MMQ=60,60,60,0;MPOS=18,23,0;POPAF=7.30,7.30,7.30;TLOD=-3.309e+00,-3.170e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6411,9,16,0:1.638e-04,2.235e-04,1.543e-04:6436:3051,5,8,0:3360,4,8,0 +MT 13675 . A C, . base_quality;t_lod CONTQ=93;DP=6631;ECNT=17;MBQ=29,9,0;MFRL=337,362,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.492e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6440,12,0:1.613e-04,1.537e-04:6452:3061,7,0:3379,5,0 MT 13676 . A . . END=13676 GT:DP:MIN_DP:TLOD 0/0:6462:6462:-3.335e+00 MT 13677 . C . . END=13679 GT:DP:MIN_DP:TLOD 0/0:6530:6513:-3.807e+00 -MT 13680 . C T, . PASS CONTQ=93;DP=6649;ECNT=17;MBQ=8,29,0;MFRL=325,336,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.017,0.035,0.948;TLOD=20735.68,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:27,6444,0:0.999,1.535e-04:6471:15,3047,0:12,3397,0 -MT 13681 . A C, . base_quality;t_lod CONTQ=93;DP=6654;ECNT=17;MBQ=28,7,0;MFRL=336,361,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=1.385e-04,0.030,0.970;TLOD=-3.471e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6387,73,0:1.699e-04,1.545e-04:6460:3019,36,0:3368,37,0 +MT 13680 . C T, . PASS CONTQ=93;DP=6649;ECNT=17;MBQ=8,29,0;MFRL=325,336,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20735.68,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:27,6444,0:0.999,1.535e-04:6471:15,3047,0:12,3397,0 +MT 13681 . A C, . base_quality;t_lod CONTQ=93;DP=6654;ECNT=17;MBQ=28,7,0;MFRL=336,361,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.471e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6387,73,0:1.699e-04,1.545e-04:6460:3019,36,0:3368,37,0 MT 13682 . C . . END=13688 GT:DP:MIN_DP:TLOD 0/0:6496:6465:-3.813e+00 -MT 13689 . A G, . base_quality;t_lod CONTQ=93;DP=6599;ECNT=17;MBQ=28,10,0;MFRL=335,364,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.873e-03;SAPP=1.306e-04,3.850e-04,0.999;TLOD=-3.480e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6396,12,0:1.658e-04,1.548e-04:6408:3026,5,0:3370,7,0 +MT 13689 . A G, . base_quality;t_lod CONTQ=93;DP=6599;ECNT=17;MBQ=28,10,0;MFRL=335,364,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6396,12,0:1.658e-04,1.548e-04:6408:3026,5,0:3370,7,0 MT 13690 . A . . END=13690 GT:DP:MIN_DP:TLOD 0/0:6443:6443:-3.701e+00 -MT 13691 . A C,T, . base_quality;t_lod CONTQ=93;DP=6577;ECNT=17;MBQ=28,5,12,0;MFRL=334,352,379,0;MMQ=60,60,60,0;MPOS=28,63,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,0.013;SAPP=8.617e-12,1.000,1.250e-07;TLOD=-3.213e+00,-3.321e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6289,86,9,0:2.086e-04,1.592e-04,1.567e-04:6384:2965,40,4,0:3324,46,5,0 +MT 13691 . A C,T, . base_quality;t_lod CONTQ=93;DP=6577;ECNT=17;MBQ=28,5,12,0;MFRL=334,352,379,0;MMQ=60,60,60,0;MPOS=28,63,0;POPAF=7.30,7.30,7.30;TLOD=-3.213e+00,-3.321e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6289,86,9,0:2.086e-04,1.592e-04,1.567e-04:6384:2965,40,4,0:3324,46,5,0 MT 13692 . C . . END=13696 GT:DP:MIN_DP:TLOD 0/0:6464:6380:-3.812e+00 -MT 13697 . T C, . base_quality;t_lod CONTQ=93;DP=6542;ECNT=17;MBQ=28,5,0;MFRL=334,404,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.512e-03;SAPP=2.242e-04,3.393e-04,0.999;TLOD=-3.501e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6354,16,0:1.576e-04,1.558e-04:6370:2986,5,0:3368,11,0 +MT 13697 . T C, . base_quality;t_lod CONTQ=93;DP=6542;ECNT=17;MBQ=28,5,0;MFRL=334,404,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.501e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6354,16,0:1.576e-04,1.558e-04:6370:2986,5,0:3368,11,0 MT 13698 . T . . END=13698 GT:DP:MIN_DP:TLOD 0/0:6379:6379:-3.685e+00 -MT 13699 . A C, . base_quality;t_lod CONTQ=93;DP=6529;ECNT=17;MBQ=29,9,0;MFRL=334,354,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.653e-04;SAPP=4.602e-05,9.387e-04,0.999;TLOD=-3.510e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6445,3,0:1.547e-04,1.544e-04:6448:3013,3,0:3432,0,0 +MT 13699 . A C, . base_quality;t_lod CONTQ=93;DP=6529;ECNT=17;MBQ=29,9,0;MFRL=334,354,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6445,3,0:1.547e-04,1.544e-04:6448:3013,3,0:3432,0,0 MT 13700 . A . . END=13703 GT:DP:MIN_DP:TLOD 0/0:6334:6233:-3.802e+00 -MT 13704 . C A, . base_quality;t_lod CONTQ=93;DP=6510;ECNT=17;MBQ=28,13,0;MFRL=334,270,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.465e-04;SAPP=1.407e-04,1.960e-04,1.000;TLOD=-3.466e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6333,6,0:1.714e-04,1.563e-04:6339:2952,3,0:3381,3,0 +MT 13704 . C A, . base_quality;t_lod CONTQ=93;DP=6510;ECNT=17;MBQ=28,13,0;MFRL=334,270,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-3.466e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6333,6,0:1.714e-04,1.563e-04:6339:2952,3,0:3381,3,0 MT 13705 . C . . END=13707 GT:DP:MIN_DP:TLOD 0/0:6334:6293:-3.796e+00 -MT 13708 . G A, . base_quality;t_lod CONTQ=93;DP=6494;ECNT=17;MBQ=28,13,0;MFRL=334,393,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.00,0.010,7.930e-04;SAPP=2.002e-03,5.404e-05,0.998;TLOD=-3.298e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6300,5,0:2.435e-04,1.573e-04:6305:2909,3,0:3391,2,0 +MT 13708 . G A, . base_quality;t_lod CONTQ=93;DP=6494;ECNT=17;MBQ=28,13,0;MFRL=334,393,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.298e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6300,5,0:2.435e-04,1.573e-04:6305:2909,3,0:3391,2,0 MT 13709 . C . . END=13711 GT:DP:MIN_DP:TLOD 0/0:6324:6296:-3.798e+00 -MT 13712 . C A, . base_quality;t_lod CONTQ=93;DP=6480;ECNT=17;MBQ=28,12,0;MFRL=334,461,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.109e-03;SAPP=4.114e-04,1.059e-04,0.999;TLOD=-3.459e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6306,7,0:1.740e-04,1.570e-04:6313:2877,3,0:3429,4,0 -MT 13713 . C A, . base_quality;t_lod CONTQ=93;DP=6482;ECNT=17;MBQ=25,14,0;MFRL=334,291,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.503e-04;SAPP=1.375e-04,2.041e-04,1.000;TLOD=-3.393e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6308,6,0:1.994e-04,1.571e-04:6314:2869,3,0:3439,3,0 +MT 13712 . C A, . base_quality;t_lod CONTQ=93;DP=6480;ECNT=17;MBQ=28,12,0;MFRL=334,461,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.459e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6306,7,0:1.740e-04,1.570e-04:6313:2877,3,0:3429,4,0 +MT 13713 . C A, . base_quality;t_lod CONTQ=93;DP=6482;ECNT=17;MBQ=25,14,0;MFRL=334,291,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.393e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6308,6,0:1.994e-04,1.571e-04:6314:2869,3,0:3439,3,0 MT 13714 . G . . END=13720 GT:DP:MIN_DP:TLOD 0/0:7050:6915:-3.841e+00 MT 13721 . T . . END=13721 GT:DP:MIN_DP:TLOD 0/0:6994:6994:-3.439e+00 MT 13722 . A . . END=13723 GT:DP:MIN_DP:TLOD 0/0:6987:6970:-3.815e+00 @@ -6073,42 +6071,42 @@ MT 14792 . C . . END=14792 GT:DP:MIN_DP:TLOD 0/0:7091:7091:-2.923e+00 MT 14793 . A . . END=14793 GT:DP:MIN_DP:TLOD 0/0:7057:7057:-1.760e-01 MT 14794 . C . . END=14794 GT:DP:MIN_DP:TLOD 0/0:7078:7078:-3.788e+00 MT 14795 . T . . END=14795 GT:DP:MIN_DP:TLOD 0/0:7059:7059:-3.262e+00 -MT 14796 . C A, . base_quality;t_lod CONTQ=93;DP=6311;ECNT=17;MBQ=28,10,0;MFRL=341,303,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.508e-04;SAPP=1.283e-03,5.304e-05,0.999;TLOD=-3.467e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6142,4,0:1.707e-04,1.611e-04:6146:2978,3,0:3164,1,0 +MT 14796 . C A, . base_quality;t_lod CONTQ=93;DP=6311;ECNT=17;MBQ=28,10,0;MFRL=341,303,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.467e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6142,4,0:1.707e-04,1.611e-04:6146:2978,3,0:3164,1,0 MT 14797 . A . . END=14797 GT:DP:MIN_DP:TLOD 0/0:6170:6170:-3.701e+00 MT 14798 . T . . END=14798 GT:DP:MIN_DP:TLOD 0/0:6148:6148:-3.423e+00 MT 14799 . T . . END=14799 GT:DP:MIN_DP:TLOD 0/0:6149:6149:-3.762e+00 MT 14800 . C . . END=14800 GT:DP:MIN_DP:TLOD 0/0:6175:6175:-3.412e+00 -MT 14801 . A C, . base_quality;t_lod CONTQ=93;DP=6330;ECNT=17;MBQ=29,8,0;MFRL=340,404,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.565e-03;SAPP=3.729e-05,0.410,0.590;TLOD=-3.449e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6149,22,0:1.779e-04,1.609e-04:6171:2973,11,0:3176,11,0 +MT 14801 . A C, . base_quality;t_lod CONTQ=93;DP=6330;ECNT=17;MBQ=29,8,0;MFRL=340,404,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.449e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6149,22,0:1.779e-04,1.609e-04:6171:2973,11,0:3176,11,0 MT 14802 . T . . END=14804 GT:DP:MIN_DP:TLOD 0/0:6176:6029:-3.761e+00 -MT 14805 . A C, . base_quality;t_lod CONTQ=93;DP=6333;ECNT=17;MBQ=27,5,0;MFRL=340,403,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.017;SAPP=0.00,1.00,0.00;TLOD=-3.365e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6025,102,0:2.218e-04,1.635e-04:6127:2885,62,0:3140,40,0 -MT 14806 . C A, . base_quality;t_lod CONTQ=93;DP=6334;ECNT=17;MBQ=28,13,0;MFRL=341,366,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.469e-04;SAPP=2.578e-04,8.132e-05,1.000;TLOD=-3.492e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6179,4,0:1.609e-04,1.604e-04:6183:2975,3,0:3204,1,0 +MT 14805 . A C, . base_quality;t_lod CONTQ=93;DP=6333;ECNT=17;MBQ=27,5,0;MFRL=340,403,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.365e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6025,102,0:2.218e-04,1.635e-04:6127:2885,62,0:3140,40,0 +MT 14806 . C A, . base_quality;t_lod CONTQ=93;DP=6334;ECNT=17;MBQ=28,13,0;MFRL=341,366,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.492e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6179,4,0:1.609e-04,1.604e-04:6183:2975,3,0:3204,1,0 MT 14807 . C . . END=14810 GT:DP:MIN_DP:TLOD 0/0:6203:6169:-3.784e+00 -MT 14811 . C A, . base_quality;t_lod CONTQ=93;DP=6355;ECNT=17;MBQ=28,13,0;MFRL=341,294,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.613e-03;SAPP=1.394e-03,8.178e-05,0.999;TLOD=-3.390e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6190,10,0:2.008e-04,1.600e-04:6200:2966,5,0:3224,5,0 -MT 14812 . C A, . base_quality;t_lod CONTQ=93;DP=6352;ECNT=17;MBQ=28,13,0;MFRL=341,374,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.128e-03;SAPP=2.134e-04,1.676e-04,1.000;TLOD=-3.144e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6198,7,0:3.031e-04,1.599e-04:6205:2968,3,0:3230,4,0 -MT 14813 . A C, . base_quality;t_lod CONTQ=93;DP=6352;ECNT=17;MBQ=28,5,0;MFRL=342,347,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.013;SAPP=3.976e-11,1.000,5.533e-07;TLOD=-3.145e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6085,83,0:3.733e-04,1.622e-04:6168:2898,49,0:3187,34,0 +MT 14811 . C A, . base_quality;t_lod CONTQ=93;DP=6355;ECNT=17;MBQ=28,13,0;MFRL=341,294,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.390e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6190,10,0:2.008e-04,1.600e-04:6200:2966,5,0:3224,5,0 +MT 14812 . C A, . base_quality;t_lod CONTQ=93;DP=6352;ECNT=17;MBQ=28,13,0;MFRL=341,374,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.144e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6198,7,0:3.031e-04,1.599e-04:6205:2968,3,0:3230,4,0 +MT 14813 . A C, . base_quality;t_lod CONTQ=93;DP=6352;ECNT=17;MBQ=28,5,0;MFRL=342,347,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.145e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6085,83,0:3.733e-04,1.622e-04:6168:2898,49,0:3187,34,0 MT 14814 . C . . END=14819 GT:DP:MIN_DP:TLOD 0/0:6221:6181:-3.790e+00 -MT 14820 . C A, . base_quality;t_lod CONTQ=93;DP=6378;ECNT=17;MBQ=28,10,0;MFRL=341,274,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.822e-04;SAPP=1.580e-04,9.341e-05,1.000;TLOD=-3.496e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6219,3,0:1.596e-04,1.593e-04:6222:2966,3,0:3253,0,0 +MT 14820 . C A, . base_quality;t_lod CONTQ=93;DP=6378;ECNT=17;MBQ=28,10,0;MFRL=341,274,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;TLOD=-3.496e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6219,3,0:1.596e-04,1.593e-04:6222:2966,3,0:3253,0,0 MT 14821 . C . . END=14821 GT:DP:MIN_DP:TLOD 0/0:6254:6254:-3.768e+00 -MT 14822 . A C, . base_quality;t_lod CONTQ=93;DP=6391;ECNT=17;MBQ=28,8,0;MFRL=341,392,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.663e-03;SAPP=1.092e-04,6.894e-03,0.993;TLOD=-3.421e+00,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6190,29,0:1.908e-04,1.597e-04:6219:2957,12,0:3233,17,0 +MT 14822 . A C, . base_quality;t_lod CONTQ=93;DP=6391;ECNT=17;MBQ=28,8,0;MFRL=341,392,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.421e+00,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6190,29,0:1.908e-04,1.597e-04:6219:2957,12,0:3233,17,0 MT 14823 . A . . END=14823 GT:DP:MIN_DP:TLOD 0/0:6206:6206:-3.467e+00 MT 14824 . C . . END=14828 GT:DP:MIN_DP:TLOD 0/0:6206:6166:-3.776e+00 -MT 14829 . C A, . t_lod CONTQ=93;DP=6438;ECNT=17;MBQ=28,28,0;MFRL=342,369,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.782e-04;SAPP=1.567e-04,9.288e-05,1.000;TLOD=-3.298e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6271,3,0:2.435e-04,1.579e-04:6274:2992,1,0:3279,2,0 +MT 14829 . C A, . t_lod CONTQ=93;DP=6438;ECNT=17;MBQ=28,28,0;MFRL=342,369,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.298e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6271,3,0:2.435e-04,1.579e-04:6274:2992,1,0:3279,2,0 MT 14830 . C . . END=14830 GT:DP:MIN_DP:TLOD 0/0:6276:6276:-3.668e+00 -MT 14831 . G A, . PASS CONTQ=93;DP=6425;ECNT=17;MBQ=22,28,0;MFRL=325,343,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.032,0.019,0.949;TLOD=20236.29,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:20,6227,0:0.999,1.587e-04:6247:11,2964,0:9,3263,0 +MT 14831 . G A, . PASS CONTQ=93;DP=6425;ECNT=17;MBQ=22,28,0;MFRL=325,343,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20236.29,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:20,6227,0:0.999,1.587e-04:6247:11,2964,0:9,3263,0 MT 14832 . C . . END=14845 GT:DP:MIN_DP:TLOD 0/0:6212:6188:-3.796e+00 -MT 14846 . G T, . base_quality;t_lod CONTQ=93;DP=6383;ECNT=17;MBQ=24,14,0;MFRL=343,397,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.259e-03;SAPP=0.045,6.174e-05,0.955;TLOD=-3.363e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6184,14,0:2.103e-04,1.602e-04:6198:2945,8,0:3239,6,0 +MT 14846 . G T, . base_quality;t_lod CONTQ=93;DP=6383;ECNT=17;MBQ=24,14,0;MFRL=343,397,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.363e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6184,14,0:2.103e-04,1.602e-04:6198:2945,8,0:3239,6,0 MT 14847 . G . . END=14853 GT:DP:MIN_DP:TLOD 0/0:6196:6193:-3.774e+00 -MT 14854 . C T, . base_quality;t_lod CONTQ=93;DP=6391;ECNT=17;MBQ=28,19,0;MFRL=343,438,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.211e-04;SAPP=3.104e-04,5.583e-05,1.000;TLOD=-3.449e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6227,2,0:1.773e-04,1.589e-04:6229:2969,0,0:3258,2,0 +MT 14854 . C T, . base_quality;t_lod CONTQ=93;DP=6391;ECNT=17;MBQ=28,19,0;MFRL=343,438,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.449e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6227,2,0:1.773e-04,1.589e-04:6229:2969,0,0:3258,2,0 MT 14855 . C . . END=14866 GT:DP:MIN_DP:TLOD 0/0:6234:6127:-3.796e+00 MT 14867 . C . . END=14867 GT:DP:MIN_DP:TLOD 0/0:6270:6270:-3.412e+00 MT 14868 . T . . END=14871 GT:DP:MIN_DP:TLOD 0/0:6236:6203:-3.782e+00 -MT 14872 . C T, . PASS CONTQ=93;DP=6401;ECNT=17;MBQ=8,28,0;MFRL=325,344,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.992;SAPP=0.018,0.026,0.956;TLOD=18990.33,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:48,6187,0:0.998,1.599e-04:6235:16,2919,0:32,3268,0 +MT 14872 . C T, . PASS CONTQ=93;DP=6401;ECNT=17;MBQ=8,28,0;MFRL=325,344,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=18990.33,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:48,6187,0:0.998,1.599e-04:6235:16,2919,0:32,3268,0 MT 14873 . C . . END=14875 GT:DP:MIN_DP:TLOD 0/0:6259:6241:-3.793e+00 -MT 14876 . C A, . base_quality;t_lod CONTQ=93;DP=6409;ECNT=17;MBQ=28,11,0;MFRL=343,381,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.802e-04;SAPP=7.145e-05,2.390e-04,1.000;TLOD=-3.498e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6245,3,0:1.589e-04,1.586e-04:6248:2946,1,0:3299,2,0 +MT 14876 . C A, . base_quality;t_lod CONTQ=93;DP=6409;ECNT=17;MBQ=28,11,0;MFRL=343,381,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.498e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6245,3,0:1.589e-04,1.586e-04:6248:2946,1,0:3299,2,0 MT 14877 . A . . END=14892 GT:DP:MIN_DP:TLOD 0/0:6247:6203:-3.795e+00 -MT 14893 . A C, . base_quality;t_lod CONTQ=93;DP=6351;ECNT=17;MBQ=29,7,0;MFRL=342,373,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.712e-03;SAPP=2.532e-03,1.210e-04,0.997;TLOD=-3.356e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6173,23,0:2.193e-04,1.604e-04:6196:2893,13,0:3280,10,0 +MT 14893 . A C, . base_quality;t_lod CONTQ=93;DP=6351;ECNT=17;MBQ=29,7,0;MFRL=342,373,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.356e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6173,23,0:2.193e-04,1.604e-04:6196:2893,13,0:3280,10,0 MT 14894 . T . . END=14896 GT:DP:MIN_DP:TLOD 0/0:6226:6215:-3.792e+00 -MT 14897 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6346;ECNT=17;MBQ=29,0,0;MFRL=342,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.508e-05,5.681e-05,1.000;TLOD=-3.499e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6269,0,0:1.586e-04,1.586e-04:6269:2946,0,0:3323,0,0 +MT 14897 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6346;ECNT=17;MBQ=29,0,0;MFRL=342,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.499e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6269,0,0:1.586e-04,1.586e-04:6269:2946,0,0:3323,0,0 MT 14898 . T . . END=14904 GT:DP:MIN_DP:TLOD 0/0:7115:7066:-3.819e+00 MT 14905 . G . . END=14905 GT:DP:MIN_DP:TLOD 0/0:7055:7055:-3.324e+00 MT 14906 . C . . END=14908 GT:DP:MIN_DP:TLOD 0/0:7099:7090:-3.792e+00 @@ -6231,29 +6229,29 @@ MT 15281 . T . . END=15282 GT:DP:MIN_DP:TLOD 0/0:7094:7088:-3.455e+00 MT 15283 . T . . END=15286 GT:DP:MIN_DP:TLOD 0/0:7117:7074:-3.774e+00 MT 15287 . T . . END=15288 GT:DP:MIN_DP:TLOD 0/0:7107:7106:-3.306e+00 MT 15289 . T . . END=15289 GT:DP:MIN_DP:TLOD 0/0:7114:7114:-3.799e+00 -MT 15290 . C A, . base_quality;t_lod CONTQ=93;DP=6588;ECNT=12;MBQ=28,11,0;MFRL=344,241,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.339e-04;SAPP=4.094e-04,8.719e-05,1.000;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,6,0:1.550e-04,1.543e-04:6425:3273,5,0:3146,1,0 -MT 15291 . A C,T, . base_quality;t_lod CONTQ=93;DP=6584;ECNT=12;MBQ=28,7,12,0;MFRL=345,332,315,0;MMQ=60,60,60,0;MPOS=27,56,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=1.023e-10,1.000,1.528e-06;TLOD=-3.275e+00,-3.325e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6311,67,9,0:1.784e-04,1.579e-04,1.560e-04:6387:3202,45,5,0:3109,22,4,0 +MT 15290 . C A, . base_quality;t_lod CONTQ=93;DP=6588;ECNT=12;MBQ=28,11,0;MFRL=344,241,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,6,0:1.550e-04,1.543e-04:6425:3273,5,0:3146,1,0 +MT 15291 . A C,T, . base_quality;t_lod CONTQ=93;DP=6584;ECNT=12;MBQ=28,7,12,0;MFRL=345,332,315,0;MMQ=60,60,60,0;MPOS=27,56,0;POPAF=7.30,7.30,7.30;TLOD=-3.275e+00,-3.325e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6311,67,9,0:1.784e-04,1.579e-04,1.560e-04:6387:3202,45,5,0:3109,22,4,0 MT 15292 . C . . END=15295 GT:DP:MIN_DP:TLOD 0/0:6450:6427:-3.794e+00 -MT 15296 . A C, . base_quality;t_lod CONTQ=93;DP=6589;ECNT=12;MBQ=28,8,0;MFRL=344,382,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.695e-03;SAPP=2.642e-08,1.000,3.591e-04;TLOD=-3.310e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6333,62,0:2.454e-04,1.556e-04:6395:3205,41,0:3128,21,0 +MT 15296 . A C, . base_quality;t_lod CONTQ=93;DP=6589;ECNT=12;MBQ=28,8,0;MFRL=344,382,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.310e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6333,62,0:2.454e-04,1.556e-04:6395:3205,41,0:3128,21,0 MT 15297 . T . . END=15300 GT:DP:MIN_DP:TLOD 0/0:6480:6450:-3.809e+00 MT 15301 . G . . END=15301 GT:DP:MIN_DP:TLOD 0/0:6435:6435:-2.709e+00 MT 15302 . C . . END=15302 GT:DP:MIN_DP:TLOD 0/0:6473:6473:-3.810e+00 -MT 15303 . C A, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=12;MBQ=28,11,0;MFRL=344,350,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.00,7.780e-04;SAPP=5.078e-05,2.358e-03,0.998;TLOD=-3.415e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6422,5,0:1.895e-04,1.541e-04:6427:3258,0,0:3164,5,0 +MT 15303 . C A, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=12;MBQ=28,11,0;MFRL=344,350,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.415e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6422,5,0:1.895e-04,1.541e-04:6427:3258,0,0:3164,5,0 MT 15304 . C . . END=15313 GT:DP:MIN_DP:TLOD 0/0:6480:6471:-3.807e+00 -MT 15314 . G T, . base_quality;t_lod CONTQ=93;DP=6622;ECNT=12;MBQ=28,12,0;MFRL=345,318,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.560e-03;SAPP=0.012,5.583e-05,0.988;TLOD=-3.489e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6402,10,0:1.622e-04,1.544e-04:6412:3256,6,0:3146,4,0 +MT 15314 . G T, . base_quality;t_lod CONTQ=93;DP=6622;ECNT=12;MBQ=28,12,0;MFRL=345,318,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.489e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6402,10,0:1.622e-04,1.544e-04:6412:3256,6,0:3146,4,0 MT 15315 . C . . END=15325 GT:DP:MIN_DP:TLOD 0/0:6511:6478:-3.809e+00 -MT 15326 . A G, . PASS CONTQ=93;DP=6672;ECNT=12;MBQ=8,28,0;MFRL=467,345,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.026,0.026,0.948;TLOD=20614.51,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,6480,0:1.000,1.528e-04:6484:1,3273,0:3,3207,0 +MT 15326 . A G, . PASS CONTQ=93;DP=6672;ECNT=12;MBQ=8,28,0;MFRL=467,345,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=20614.51,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,6480,0:1.000,1.528e-04:6484:1,3273,0:3,3207,0 MT 15327 . C . . END=15327 GT:DP:MIN_DP:TLOD 0/0:6493:6493:-3.678e+00 -MT 15328 . A C, . base_quality;t_lod CONTQ=93;DP=6638;ECNT=12;MBQ=28,6,0;MFRL=345,359,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=1.253e-04,0.091,0.909;TLOD=-3.283e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6359,90,0:2.777e-04,1.551e-04:6449:3193,59,0:3166,31,0 +MT 15328 . A C, . base_quality;t_lod CONTQ=93;DP=6638;ECNT=12;MBQ=28,6,0;MFRL=345,359,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.283e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6359,90,0:2.777e-04,1.551e-04:6449:3193,59,0:3166,31,0 MT 15329 . C . . END=15331 GT:DP:MIN_DP:TLOD 0/0:6495:6494:-3.813e+00 -MT 15332 . C A, . base_quality;t_lod CONTQ=93;DP=6612;ECNT=12;MBQ=28,13,0;MFRL=345,366,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.082e-03;SAPP=5.480e-04,8.942e-05,0.999;TLOD=-3.263e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6460,7,0:2.662e-04,1.536e-04:6467:3241,6,0:3219,1,0 -MT 15333 . A C, . base_quality;t_lod CONTQ=93;DP=6595;ECNT=12;MBQ=28,5,0;MFRL=345,367,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.019;SAPP=8.418e-09,1.000,8.700e-05;TLOD=-2.876e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6276,122,0:5.111e-04,1.569e-04:6398:3159,51,0:3117,71,0 +MT 15332 . C A, . base_quality;t_lod CONTQ=93;DP=6612;ECNT=12;MBQ=28,13,0;MFRL=345,366,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.263e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6460,7,0:2.662e-04,1.536e-04:6467:3241,6,0:3219,1,0 +MT 15333 . A C, . base_quality;t_lod CONTQ=93;DP=6595;ECNT=12;MBQ=28,5,0;MFRL=345,367,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-2.876e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6276,122,0:5.111e-04,1.569e-04:6398:3159,51,0:3117,71,0 MT 15334 . C . . END=15339 GT:DP:MIN_DP:TLOD 0/0:6502:6446:-3.805e+00 -MT 15340 . A C, . base_quality;t_lod CONTQ=93;DP=6561;ECNT=12;MBQ=28,18,0;MFRL=345,421,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.00,0.010,7.735e-04;SAPP=2.635e-03,4.924e-05,0.997;TLOD=-3.497e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6459,5,0:1.594e-04,1.539e-04:6464:3216,0,0:3243,5,0 +MT 15340 . A C, . base_quality;t_lod CONTQ=93;DP=6561;ECNT=12;MBQ=28,18,0;MFRL=345,421,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6459,5,0:1.594e-04,1.539e-04:6464:3216,0,0:3243,5,0 MT 15341 . T . . END=15351 GT:DP:MIN_DP:TLOD 0/0:6385:6275:-3.805e+00 -MT 15352 . A C, . base_quality;t_lod CONTQ=93;DP=6480;ECNT=12;MBQ=28,6,0;MFRL=345,368,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.755e-03;SAPP=0.106,7.282e-05,0.894;TLOD=-3.474e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6279,30,0:1.681e-04,1.574e-04:6309:3058,10,0:3221,20,0 +MT 15352 . A C, . base_quality;t_lod CONTQ=93;DP=6480;ECNT=12;MBQ=28,6,0;MFRL=345,368,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.474e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6279,30,0:1.681e-04,1.574e-04:6309:3058,10,0:3221,20,0 MT 15353 . A . . END=15354 GT:DP:MIN_DP:TLOD 0/0:6334:6317:-3.785e+00 -MT 15355 . G A, . t_lod CONTQ=93;DP=6484;ECNT=12;MBQ=25,25,0;MFRL=345,374,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.928e-04;SAPP=1.023e-04,2.119e-04,1.000;TLOD=-3.198e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6302,5,0:2.942e-04,1.573e-04:6307:3058,3,0:3244,2,0 +MT 15355 . G A, . t_lod CONTQ=93;DP=6484;ECNT=12;MBQ=25,25,0;MFRL=345,374,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.198e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6302,5,0:2.942e-04,1.573e-04:6307:3058,3,0:3244,2,0 MT 15356 . G . . END=15358 GT:DP:MIN_DP:TLOD 0/0:7025:7020:-3.459e+00 MT 15359 . T . . END=15360 GT:DP:MIN_DP:TLOD 0/0:7047:7028:-3.736e+00 MT 15361 . A . . END=15361 GT:DP:MIN_DP:TLOD 0/0:7097:7097:-3.366e+00 @@ -6484,44 +6482,44 @@ MT 15974 . A . . END=15974 GT:DP:MIN_DP:TLOD 0/0:7088:7088:-2.932e+00 MT 15975 . C . . END=15977 GT:DP:MIN_DP:TLOD 0/0:7081:7060:-3.832e+00 MT 15978 . C . . END=15978 GT:DP:MIN_DP:TLOD 0/0:7130:7130:-3.335e+00 MT 15979 . A . . END=15985 GT:DP:MIN_DP:TLOD 0/0:7118:7089:-3.806e+00 -MT 15986 . G T, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=24;MBQ=28,12,0;MFRL=337,383,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.387e-04;SAPP=1.317e-03,6.178e-05,0.999;TLOD=-3.473e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,6,0:1.685e-04,1.552e-04:6392:3181,3,0:3205,3,0 -MT 15987 . C A, . base_quality;t_lod CONTQ=93;DP=6581;ECNT=24;MBQ=28,14,0;MFRL=337,427,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.688e-04;SAPP=8.796e-05,1.622e-04,1.000;TLOD=-3.500e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6397,3,0:1.583e-04,1.548e-04:6400:3180,2,0:3217,1,0 -MT 15988 . A T, . base_quality;t_lod CONTQ=93;DP=6583;ECNT=24;MBQ=28,13,0;MFRL=337,325,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.274e-04;SAPP=5.241e-05,1.128e-03,0.999;TLOD=-3.507e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6372,4,0:1.556e-04,1.552e-04:6376:3172,2,0:3200,2,0 +MT 15986 . G T, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=24;MBQ=28,12,0;MFRL=337,383,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.473e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,6,0:1.685e-04,1.552e-04:6392:3181,3,0:3205,3,0 +MT 15987 . C A, . base_quality;t_lod CONTQ=93;DP=6581;ECNT=24;MBQ=28,14,0;MFRL=337,427,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.500e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6397,3,0:1.583e-04,1.548e-04:6400:3180,2,0:3217,1,0 +MT 15988 . A T, . base_quality;t_lod CONTQ=93;DP=6583;ECNT=24;MBQ=28,13,0;MFRL=337,325,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.507e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6372,4,0:1.556e-04,1.552e-04:6376:3172,2,0:3200,2,0 MT 15989 . C . . END=15989 GT:DP:MIN_DP:TLOD 0/0:6437:6437:-3.727e+00 -MT 15990 . C A, . base_quality;t_lod CONTQ=93;DP=6590;ECNT=24;MBQ=28,13,0;MFRL=337,305,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.718e-03;SAPP=7.512e-05,2.222e-03,0.998;TLOD=-3.506e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,11,0:1.560e-04,1.548e-04:6402:3175,6,0:3216,5,0 +MT 15990 . C A, . base_quality;t_lod CONTQ=93;DP=6590;ECNT=24;MBQ=28,13,0;MFRL=337,305,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,11,0:1.560e-04,1.548e-04:6402:3175,6,0:3216,5,0 MT 15991 . C . . END=15991 GT:DP:MIN_DP:TLOD 0/0:6442:6442:-3.798e+00 -MT 15992 . A G, . base_quality;t_lod CONTQ=93;DP=6593;ECNT=24;MBQ=29,17,0;MFRL=337,189,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.076e-04;SAPP=5.155e-05,3.235e-04,1.000;TLOD=-3.348e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6500,2,0:2.105e-04,1.529e-04:6502:3210,2,0:3290,0,0 -MT 15993 . A C, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=24;MBQ=28,8,0;MFRL=336,439,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.431e-03;SAPP=1.511e-04,7.203e-04,0.999;TLOD=-3.395e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6390,22,0:2.039e-04,1.548e-04:6412:3163,16,0:3227,6,0 +MT 15992 . A G, . base_quality;t_lod CONTQ=93;DP=6593;ECNT=24;MBQ=29,17,0;MFRL=337,189,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.348e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6500,2,0:2.105e-04,1.529e-04:6502:3210,2,0:3290,0,0 +MT 15993 . A C, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=24;MBQ=28,8,0;MFRL=336,439,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.395e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6390,22,0:2.039e-04,1.548e-04:6412:3163,16,0:3227,6,0 MT 15994 . A . . END=16001 GT:DP:MIN_DP:TLOD 0/0:6491:6443:-3.803e+00 -MT 16002 . T A, . base_quality;t_lod CONTQ=93;DP=6614;ECNT=24;MBQ=29,10,0;MFRL=336,375,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.00,0.010,7.793e-04;SAPP=3.410e-03,4.728e-05,0.997;TLOD=-3.510e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6411,5,0:1.547e-04,1.541e-04:6416:3171,4,0:3240,1,0 -MT 16003 . T A, . base_quality;t_lod CONTQ=93;DP=6615;ECNT=24;MBQ=28,11,0;MFRL=336,285,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.340e-04;SAPP=1.135e-03,6.373e-05,0.999;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6418,6,0:1.548e-04,1.541e-04:6424:3172,4,0:3246,2,0 +MT 16002 . T A, . base_quality;t_lod CONTQ=93;DP=6614;ECNT=24;MBQ=29,10,0;MFRL=336,375,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6411,5,0:1.547e-04,1.541e-04:6416:3171,4,0:3240,1,0 +MT 16003 . T A, . base_quality;t_lod CONTQ=93;DP=6615;ECNT=24;MBQ=28,11,0;MFRL=336,285,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6418,6,0:1.548e-04,1.541e-04:6424:3172,4,0:3246,2,0 MT 16004 . C . . END=16005 GT:DP:MIN_DP:TLOD 0/0:6499:6489:-3.808e+00 -MT 16006 . A C, . base_quality;t_lod CONTQ=93;DP=6636;ECNT=24;MBQ=29,8,0;MFRL=336,386,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.020e-03;SAPP=8.856e-05,0.020,0.980;TLOD=-3.378e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6441,26,0:2.132e-04,1.536e-04:6467:3182,13,0:3259,13,0 +MT 16006 . A C, . base_quality;t_lod CONTQ=93;DP=6636;ECNT=24;MBQ=29,8,0;MFRL=336,386,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.378e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6441,26,0:2.132e-04,1.536e-04:6467:3182,13,0:3259,13,0 MT 16007 . A . . END=16008 GT:DP:MIN_DP:TLOD 0/0:6506:6504:-3.795e+00 -MT 16009 . T G, . base_quality;t_lod CONTQ=93;DP=6664;ECNT=24;MBQ=28,8,0;MFRL=336,423,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.077e-03;SAPP=0.106,5.679e-05,0.894;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6479,20,0:1.553e-04,1.529e-04:6499:3199,9,0:3280,11,0 +MT 16009 . T G, . base_quality;t_lod CONTQ=93;DP=6664;ECNT=24;MBQ=28,8,0;MFRL=336,423,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6479,20,0:1.553e-04,1.529e-04:6499:3199,9,0:3280,11,0 MT 16010 . T . . END=16011 GT:DP:MIN_DP:TLOD 0/0:6528:6520:-3.778e+00 -MT 16012 . A C,T, . base_quality;t_lod CONTQ=93;DP=6677;ECNT=24;MBQ=28,7,11,0;MFRL=336,401,346,0;MMQ=60,60,60,0;MPOS=31,39,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,5.532e-03;SAPP=1.267e-04,3.918e-03,0.996;TLOD=-3.140e+00,-3.323e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6472,36,7,0:2.406e-04,1.586e-04,1.527e-04:6515:3192,14,2,0:3280,22,5,0 -MT 16013 . A C,T, . base_quality;t_lod CONTQ=93;DP=6687;ECNT=24;MBQ=28,8,11,0;MFRL=336,352,355,0;MMQ=60,60,60,0;MPOS=39,5,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.00,7.714e-04;SAPP=4.902e-05,2.646e-03,0.997;TLOD=-3.259e+00,-3.059e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6477,27,5,0:1.849e-04,2.656e-04,1.509e-04:6509:3185,19,4,0:3292,8,1,0 -MT 16014 . C A, . base_quality;t_lod CONTQ=93;DP=6692;ECNT=24;MBQ=28,12,0;MFRL=336,462,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.593e-04;SAPP=1.880e-04,7.744e-05,1.000;TLOD=-3.517e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6528,3,0:1.522e-04,1.519e-04:6531:3211,2,0:3317,1,0 +MT 16012 . A C,T, . base_quality;t_lod CONTQ=93;DP=6677;ECNT=24;MBQ=28,7,11,0;MFRL=336,401,346,0;MMQ=60,60,60,0;MPOS=31,39,0;POPAF=7.30,7.30,7.30;TLOD=-3.140e+00,-3.323e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6472,36,7,0:2.406e-04,1.586e-04,1.527e-04:6515:3192,14,2,0:3280,22,5,0 +MT 16013 . A C,T, . base_quality;t_lod CONTQ=93;DP=6687;ECNT=24;MBQ=28,8,11,0;MFRL=336,352,355,0;MMQ=60,60,60,0;MPOS=39,5,0;POPAF=7.30,7.30,7.30;TLOD=-3.259e+00,-3.059e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6477,27,5,0:1.849e-04,2.656e-04,1.509e-04:6509:3185,19,4,0:3292,8,1,0 +MT 16014 . C A, . base_quality;t_lod CONTQ=93;DP=6692;ECNT=24;MBQ=28,12,0;MFRL=336,462,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6528,3,0:1.522e-04,1.519e-04:6531:3211,2,0:3317,1,0 MT 16015 . T . . END=16016 GT:DP:MIN_DP:TLOD 0/0:6521:6519:-3.810e+00 MT 16017 . T . . END=16017 GT:DP:MIN_DP:TLOD 0/0:6524:6524:-3.476e+00 MT 16018 . T . . END=16019 GT:DP:MIN_DP:TLOD 0/0:6532:6521:-3.734e+00 -MT 16020 . T A, . base_quality;t_lod CONTQ=93;DP=6729;ECNT=24;MBQ=28,7,0;MFRL=336,328,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.223e-03;SAPP=9.086e-04,7.974e-05,0.999;TLOD=-3.471e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6531,8,0:1.690e-04,1.514e-04:6539:3216,3,0:3315,5,0 -MT 16021 . C A, . base_quality;t_lod CONTQ=93;DP=6735;ECNT=24;MBQ=28,18,0;MFRL=336,417,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.574e-04;SAPP=7.926e-05,1.798e-04,1.000;TLOD=-3.393e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6556,3,0:1.974e-04,1.510e-04:6559:3226,0,0:3330,3,0 +MT 16020 . T A, . base_quality;t_lod CONTQ=93;DP=6729;ECNT=24;MBQ=28,7,0;MFRL=336,328,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.471e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6531,8,0:1.690e-04,1.514e-04:6539:3216,3,0:3315,5,0 +MT 16021 . C A, . base_quality;t_lod CONTQ=93;DP=6735;ECNT=24;MBQ=28,18,0;MFRL=336,417,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.393e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6556,3,0:1.974e-04,1.510e-04:6559:3226,0,0:3330,3,0 MT 16022 . T . . END=16022 GT:DP:MIN_DP:TLOD 0/0:6556:6556:-3.790e+00 -MT 16023 . G A, . PASS CONTQ=93;DP=6732;ECNT=24;MBQ=28,29,0;MFRL=336,332,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.091,0.091,0.092;SAPP=3.991e-03,7.189e-04,0.995;TLOD=1061.12,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5927,598,0:0.089,1.519e-04:6525:2920,285,0:3007,313,0 -MT 16024 . T G, . base_quality;t_lod CONTQ=93;DP=6726;ECNT=24;MBQ=29,7,0;MFRL=335,462,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.529e-03;SAPP=1.224e-04,3.267e-04,1.000;TLOD=-3.516e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6531,10,0:1.525e-04,1.515e-04:6541:3215,4,0:3316,6,0 +MT 16023 . G A, . PASS CONTQ=93;DP=6732;ECNT=24;MBQ=28,29,0;MFRL=336,332,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=1061.12,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5927,598,0:0.089,1.519e-04:6525:2920,285,0:3007,313,0 +MT 16024 . T G, . base_quality;t_lod CONTQ=93;DP=6726;ECNT=24;MBQ=29,7,0;MFRL=335,462,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6531,10,0:1.525e-04,1.515e-04:6541:3215,4,0:3316,6,0 MT 16025 . T . . END=16033 GT:DP:MIN_DP:TLOD 0/0:6562:6545:-3.817e+00 -MT 16034 . G T, . base_quality;t_lod CONTQ=93;DP=6695;ECNT=24;MBQ=28,12,0;MFRL=335,280,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.226e-03;SAPP=8.307e-04,8.233e-05,0.999;TLOD=-3.515e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6517,8,0:1.529e-04,1.520e-04:6525:3191,4,0:3326,4,0 +MT 16034 . G T, . base_quality;t_lod CONTQ=93;DP=6695;ECNT=24;MBQ=28,12,0;MFRL=335,280,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6517,8,0:1.529e-04,1.520e-04:6525:3191,4,0:3326,4,0 MT 16035 . G . . END=16035 GT:DP:MIN_DP:TLOD 0/0:6532:6532:-3.774e+00 -MT 16036 . G T, . base_quality;t_lod CONTQ=93;DP=6685;ECNT=24;MBQ=28,10,0;MFRL=335,297,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.128e-04;SAPP=1.153e-04,1.217e-04,1.000;TLOD=-3.516e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6523,4,0:1.524e-04,1.520e-04:6527:3189,2,0:3334,2,0 +MT 16036 . G T, . base_quality;t_lod CONTQ=93;DP=6685;ECNT=24;MBQ=28,10,0;MFRL=335,297,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6523,4,0:1.524e-04,1.520e-04:6527:3189,2,0:3334,2,0 MT 16037 . A . . END=16045 GT:DP:MIN_DP:TLOD 0/0:6543:6510:-3.807e+00 -MT 16046 . T A,G, . base_quality;t_lod CONTQ=93;DP=6658;ECNT=24;MBQ=29,24,8,0;MFRL=335,305,406,0;MMQ=60,60,60,0;MPOS=42,24,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.003e-03;SAPP=1.721e-04,2.887e-04,1.000;TLOD=-3.211e+00,-3.171e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6477,2,13,0:1.999e-04,2.192e-04,1.527e-04:6492:3121,0,8,0:3356,2,5,0 -MT 16047 . G T, . base_quality;t_lod CONTQ=93;DP=6657;ECNT=24;MBQ=28,13,0;MFRL=335,377,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.387e-03;SAPP=5.040e-03,5.981e-05,0.995;TLOD=-3.259e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6480,9,0:2.639e-04,1.528e-04:6489:3123,2,0:3357,7,0 -MT 16048 . G T, . base_quality;t_lod CONTQ=93;DP=6656;ECNT=24;MBQ=28,13,0;MFRL=335,365,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.161e-03;SAPP=0.084,5.232e-05,0.916;TLOD=-3.462e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6464,14,0:1.723e-04,1.532e-04:6478:3112,7,0:3352,7,0 -MT 16049 . G T, . base_quality;t_lod CONTQ=93;DP=6649;ECNT=24;MBQ=28,13,0;MFRL=335,340,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.008e-03;SAPP=2.226e-03,8.296e-05,0.998;TLOD=-2.868e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6460,13,0:4.100e-04,1.534e-04:6473:3101,8,0:3359,5,0 +MT 16046 . T A,G, . base_quality;t_lod CONTQ=93;DP=6658;ECNT=24;MBQ=29,24,8,0;MFRL=335,305,406,0;MMQ=60,60,60,0;MPOS=42,24,0;POPAF=7.30,7.30,7.30;TLOD=-3.211e+00,-3.171e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6477,2,13,0:1.999e-04,2.192e-04,1.527e-04:6492:3121,0,8,0:3356,2,5,0 +MT 16047 . G T, . base_quality;t_lod CONTQ=93;DP=6657;ECNT=24;MBQ=28,13,0;MFRL=335,377,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.259e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6480,9,0:2.639e-04,1.528e-04:6489:3123,2,0:3357,7,0 +MT 16048 . G T, . base_quality;t_lod CONTQ=93;DP=6656;ECNT=24;MBQ=28,13,0;MFRL=335,365,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.462e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6464,14,0:1.723e-04,1.532e-04:6478:3112,7,0:3352,7,0 +MT 16049 . G T, . base_quality;t_lod CONTQ=93;DP=6649;ECNT=24;MBQ=28,13,0;MFRL=335,340,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-2.868e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6460,13,0:4.100e-04,1.534e-04:6473:3101,8,0:3359,5,0 MT 16050 . T . . END=16056 GT:DP:MIN_DP:TLOD 0/0:6514:6450:-3.806e+00 -MT 16057 . C T, . base_quality;t_lod CONTQ=93;DP=6630;ECNT=24;MBQ=28,15,0;MFRL=335,374,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.200e-04;SAPP=2.770e-04,7.288e-05,1.000;TLOD=-3.475e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6448,4,0:1.673e-04,1.535e-04:6452:3086,1,0:3362,3,0 +MT 16057 . C T, . base_quality;t_lod CONTQ=93;DP=6630;ECNT=24;MBQ=28,15,0;MFRL=335,374,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6448,4,0:1.673e-04,1.535e-04:6452:3086,1,0:3362,3,0 MT 16058 . A . . END=16058 GT:DP:MIN_DP:TLOD 0/0:7194:7194:-3.460e+00 MT 16059 . A . . END=16065 GT:DP:MIN_DP:TLOD 0/0:7127:7086:-3.781e+00 MT 16066 . A . . END=16066 GT:DP:MIN_DP:TLOD 0/0:7079:7079:-3.473e+00 @@ -6549,44 +6547,44 @@ MT 16132 . A . . END=16147 GT:DP:MIN_DP:TLOD 0/0:7130:7068:-3.844e+00 MT 16148 . C . . END=16148 GT:DP:MIN_DP:TLOD 0/0:7182:7182:-3.141e+00 MT 16149 . A . . END=16153 GT:DP:MIN_DP:TLOD 0/0:7157:7089:-3.819e+00 MT 16154 . T . . END=16154 GT:DP:MIN_DP:TLOD 0/0:7125:7125:-3.417e+00 -MT 16155 . A C, . base_quality;t_lod CONTQ=93;DP=6589;ECNT=22;MBQ=29,5,0;MFRL=330,369,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.115e-03;SAPP=2.100e-04,3.310e-04,0.999;TLOD=-3.475e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6400,20,0:1.675e-04,1.545e-04:6420:3164,9,0:3236,11,0 +MT 16155 . A C, . base_quality;t_lod CONTQ=93;DP=6589;ECNT=22;MBQ=29,5,0;MFRL=330,369,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6400,20,0:1.675e-04,1.545e-04:6420:3164,9,0:3236,11,0 MT 16156 . G . . END=16156 GT:DP:MIN_DP:TLOD 0/0:6423:6423:-3.807e+00 MT 16157 . T . . END=16157 GT:DP:MIN_DP:TLOD 0/0:6468:6468:-3.469e+00 -MT 16158 . A C, . base_quality;t_lod CONTQ=93;DP=6577;ECNT=22;MBQ=29,9,0;MFRL=330,350,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.344e-04;SAPP=1.735e-04,1.515e-04,1.000;TLOD=-3.494e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6415,6,0:1.605e-04,1.544e-04:6421:3168,1,0:3247,5,0 +MT 16158 . A C, . base_quality;t_lod CONTQ=93;DP=6577;ECNT=22;MBQ=29,9,0;MFRL=330,350,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6415,6,0:1.605e-04,1.544e-04:6421:3168,1,0:3247,5,0 MT 16159 . C . . END=16161 GT:DP:MIN_DP:TLOD 0/0:6477:6476:-3.805e+00 -MT 16162 . A C, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=22;MBQ=29,10,0;MFRL=331,343,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.776e-04;SAPP=1.086e-04,1.830e-04,1.000;TLOD=-3.484e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,5,0:1.642e-04,1.541e-04:6430:3164,2,0:3261,3,0 -MT 16163 . A C, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=22;MBQ=28,8,0;MFRL=330,398,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.264e-03;SAPP=1.175e-04,1.329e-03,0.999;TLOD=-3.504e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6413,21,0:1.567e-04,1.543e-04:6434:3152,12,0:3261,9,0 +MT 16162 . A C, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=22;MBQ=29,10,0;MFRL=331,343,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-3.484e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,5,0:1.642e-04,1.541e-04:6430:3164,2,0:3261,3,0 +MT 16163 . A C, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=22;MBQ=28,8,0;MFRL=330,398,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.504e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6413,21,0:1.567e-04,1.543e-04:6434:3152,12,0:3261,9,0 MT 16164 . A . . END=16164 GT:DP:MIN_DP:TLOD 0/0:6484:6484:-3.617e+00 -MT 16165 . A C, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=22;MBQ=28,9,0;MFRL=331,367,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.641e-03;SAPP=7.156e-05,0.017,0.983;TLOD=-3.001e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,17,0:3.959e-04,1.544e-04:6436:3151,9,0:3268,8,0 -MT 16166 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=6585;ECNT=22;MBQ=28,7,0;MFRL=331,347,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.00,8.423e-03;SAPP=5.106e-17,1.000,1.025e-12;TLOD=-3.482e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6357,54,0:1.652e-04,1.554e-04:6411:3114,27,0:3243,27,0 +MT 16165 . A C, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=22;MBQ=28,9,0;MFRL=331,367,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.001e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,17,0:3.959e-04,1.544e-04:6436:3151,9,0:3268,8,0 +MT 16166 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=6585;ECNT=22;MBQ=28,7,0;MFRL=331,347,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.482e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6357,54,0:1.652e-04,1.554e-04:6411:3114,27,0:3243,27,0 MT 16167 . C . . END=16168 GT:DP:MIN_DP:TLOD 0/0:6484:6481:-3.806e+00 -MT 16169 . C A, . base_quality;t_lod CONTQ=93;DP=6591;ECNT=22;MBQ=28,19,0;MFRL=331,346,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.557e-03;SAPP=2.321e-03,6.942e-05,0.998;TLOD=-3.228e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6413,10,0:2.837e-04,1.543e-04:6423:3127,4,0:3286,6,0 +MT 16169 . C A, . base_quality;t_lod CONTQ=93;DP=6591;ECNT=22;MBQ=28,19,0;MFRL=331,346,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.228e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6413,10,0:2.837e-04,1.543e-04:6423:3127,4,0:3286,6,0 MT 16170 . A . . END=16170 GT:DP:MIN_DP:TLOD 0/0:6475:6475:-3.765e+00 -MT 16171 . A C, . base_quality;t_lod CONTQ=93;DP=6583;ECNT=22;MBQ=28,13,0;MFRL=331,439,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.083e-04;SAPP=1.080e-04,1.045e-04,1.000;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6485,2,0:1.544e-04,1.532e-04:6487:3147,1,0:3338,1,0:0|1:16171_A_C:16171 -MT 16172 . T A, . base_quality;t_lod CONTQ=93;DP=6578;ECNT=22;MBQ=28,11,0;MFRL=331,347,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.414e-03;SAPP=1.031e-04,4.982e-04,0.999;TLOD=-3.504e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6357,9,0:1.566e-04,1.556e-04:6366:3081,5,0:3276,4,0 +MT 16171 . A C, . base_quality;t_lod CONTQ=93;DP=6583;ECNT=22;MBQ=28,13,0;MFRL=331,439,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6485,2,0:1.544e-04,1.532e-04:6487:3147,1,0:3338,1,0:0|1:16171_A_C:16171 +MT 16172 . T A, . base_quality;t_lod CONTQ=93;DP=6578;ECNT=22;MBQ=28,11,0;MFRL=331,347,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.504e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6357,9,0:1.566e-04,1.556e-04:6366:3081,5,0:3276,4,0 MT 16173 . C . . END=16182 GT:DP:MIN_DP:TLOD 0/0:6421:6385:-3.808e+00 -MT 16183 . A C,T, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=22;MBQ=28,5,14,0;MFRL=331,323,387,0;MMQ=60,60,60,0;MPOS=26,35,0;POPAF=7.30,7.30,7.30;SAAF=0.030,0.010,0.032;SAPP=0.00,1.00,0.00;TLOD=-2.593e+00,-3.261e+00,-3.322e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6179,202,9,0:6.822e-04,1.835e-04,1.590e-04:6390:2942,109,4,0:3237,93,5,0 +MT 16183 . A C,T, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=22;MBQ=28,5,14,0;MFRL=331,323,387,0;MMQ=60,60,60,0;MPOS=26,35,0;POPAF=7.30,7.30,7.30;TLOD=-2.593e+00,-3.261e+00,-3.322e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6179,202,9,0:6.822e-04,1.835e-04,1.590e-04:6390:2942,109,4,0:3237,93,5,0 MT 16184 . C . . END=16185 GT:DP:MIN_DP:TLOD 0/0:6423:6409:-3.801e+00 -MT 16186 . C A,T, . base_quality;t_lod CONTQ=93;DP=6607;ECNT=22;MBQ=28,13,14,0;MFRL=332,340,336,0;MMQ=60,60,60,0;MPOS=22,45,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.400e-03;SAPP=7.437e-05,1.407e-03,0.999;TLOD=-3.237e+00,-3.270e+00,-3.335e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6418,9,6,0:1.905e-04,1.792e-04,1.542e-04:6433:3071,3,4,0:3347,6,2,0 +MT 16186 . C A,T, . base_quality;t_lod CONTQ=93;DP=6607;ECNT=22;MBQ=28,13,14,0;MFRL=332,340,336,0;MMQ=60,60,60,0;MPOS=22,45,0;POPAF=7.30,7.30,7.30;TLOD=-3.237e+00,-3.270e+00,-3.335e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6418,9,6,0:1.905e-04,1.792e-04,1.542e-04:6433:3071,3,4,0:3347,6,2,0 MT 16187 . C . . END=16191 GT:DP:MIN_DP:TLOD 0/0:6408:6349:-3.806e+00 -MT 16192 . C T, . PASS CONTQ=93;DP=6602;ECNT=22;MBQ=28,28,0;MFRL=333,372,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.549e-03;SAPP=5.393e-04,3.604e-04,0.999;TLOD=21.96,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6371,42,0:5.593e-03,1.543e-04:6413:3035,20,0:3336,22,0 +MT 16192 . C T, . PASS CONTQ=93;DP=6602;ECNT=22;MBQ=28,28,0;MFRL=333,372,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=21.96,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6371,42,0:5.593e-03,1.543e-04:6413:3035,20,0:3336,22,0 MT 16193 . C . . END=16193 GT:DP:MIN_DP:TLOD 0/0:6437:6437:-3.806e+00 -MT 16194 . A C, . base_quality;t_lod CONTQ=93;DP=6607;ECNT=22;MBQ=29,9,0;MFRL=333,424,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.211e-04;SAPP=6.477e-05,9.942e-04,0.999;TLOD=-3.511e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6508,6,0:1.543e-04,1.527e-04:6514:3095,5,0:3413,1,0:0|1:16171_A_C:16171 +MT 16194 . A C, . base_quality;t_lod CONTQ=93;DP=6607;ECNT=22;MBQ=29,9,0;MFRL=333,424,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6508,6,0:1.543e-04,1.527e-04:6514:3095,5,0:3413,1,0:0|1:16171_A_C:16171 MT 16195 . T . . END=16197 GT:DP:MIN_DP:TLOD 0/0:6444:6423:-3.803e+00 -MT 16198 . T C, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=22;MBQ=29,8,0;MFRL=333,395,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.404e-03;SAPP=1.405e-04,2.733e-04,1.000;TLOD=-3.500e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6402,9,0:1.580e-04,1.545e-04:6411:3033,3,0:3369,6,0 +MT 16198 . T C, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=22;MBQ=29,8,0;MFRL=333,395,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.500e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6402,9,0:1.580e-04,1.545e-04:6411:3033,3,0:3369,6,0 MT 16199 . T . . END=16203 GT:DP:MIN_DP:TLOD 0/0:6454:6428:-3.808e+00 -MT 16204 . G T, . base_quality;t_lod CONTQ=93;DP=6546;ECNT=22;MBQ=29,15,0;MFRL=333,425,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.278e-04;SAPP=1.206e-03,5.152e-05,0.999;TLOD=-3.495e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6367,4,0:1.599e-04,1.555e-04:6371:3002,1,0:3365,3,0 -MT 16205 . C A, . base_quality;t_lod CONTQ=93;DP=6541;ECNT=22;MBQ=29,14,0;MFRL=333,336,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.704e-04;SAPP=1.688e-04,8.580e-05,1.000;TLOD=-3.507e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6374,3,0:1.557e-04,1.553e-04:6377:3015,2,0:3359,1,0 +MT 16204 . G T, . base_quality;t_lod CONTQ=93;DP=6546;ECNT=22;MBQ=29,15,0;MFRL=333,425,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6367,4,0:1.599e-04,1.555e-04:6371:3002,1,0:3365,3,0 +MT 16205 . C A, . base_quality;t_lod CONTQ=93;DP=6541;ECNT=22;MBQ=29,14,0;MFRL=333,336,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.507e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6374,3,0:1.557e-04,1.553e-04:6377:3015,2,0:3359,1,0 MT 16206 . A . . END=16219 GT:DP:MIN_DP:TLOD 0/0:6372:6324:-3.797e+00 -MT 16220 . A C, . base_quality;t_lod CONTQ=93;DP=6428;ECNT=22;MBQ=28,5,0;MFRL=333,346,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.918e-03;SAPP=1.726e-06,0.974,0.026;TLOD=-3.459e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6215,37,0:1.741e-04,1.590e-04:6252:2877,21,0:3338,16,0 -MT 16221 . C A, . base_quality;t_lod CONTQ=93;DP=6421;ECNT=22;MBQ=28,13,0;MFRL=333,275,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.117e-03;SAPP=1.340e-03,7.182e-05,0.999;TLOD=-3.403e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6260,7,0:1.968e-04,1.582e-04:6267:2910,2,0:3350,5,0 +MT 16220 . A C, . base_quality;t_lod CONTQ=93;DP=6428;ECNT=22;MBQ=28,5,0;MFRL=333,346,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.459e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6215,37,0:1.741e-04,1.590e-04:6252:2877,21,0:3338,16,0 +MT 16221 . C A, . base_quality;t_lod CONTQ=93;DP=6421;ECNT=22;MBQ=28,13,0;MFRL=333,275,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.403e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6260,7,0:1.968e-04,1.582e-04:6267:2910,2,0:3350,5,0 MT 16222 . C . . END=16222 GT:DP:MIN_DP:TLOD 0/0:6344:6344:-3.716e+00 -MT 16223 . C T,A, . t_lod CONTQ=93;DP=6421;ECNT=22;MBQ=28,28,13,0;MFRL=334,267,278,0;MMQ=60,60,60,0;MPOS=27,23,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.119e-03;SAPP=2.126e-04,1.662e-04,1.000;TLOD=-2.635e+00,-3.127e+00,-3.323e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6248,7,12,0:4.767e-04,2.451e-04,1.583e-04:6267:2898,4,6,0:3350,3,6,0 -MT 16224 . T C, . base_quality;t_lod CONTQ=93;DP=6427;ECNT=22;MBQ=28,8,0;MFRL=333,360,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.010e-03;SAPP=0.630,3.650e-05,0.370;TLOD=-3.381e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6159,56,0:2.109e-04,1.601e-04:6215:2859,26,0:3300,30,0 +MT 16223 . C T,A, . t_lod CONTQ=93;DP=6421;ECNT=22;MBQ=28,28,13,0;MFRL=334,267,278,0;MMQ=60,60,60,0;MPOS=27,23,0;POPAF=7.30,7.30,7.30;TLOD=-2.635e+00,-3.127e+00,-3.323e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6248,7,12,0:4.767e-04,2.451e-04,1.583e-04:6267:2898,4,6,0:3350,3,6,0 +MT 16224 . T C, . base_quality;t_lod CONTQ=93;DP=6427;ECNT=22;MBQ=28,8,0;MFRL=333,360,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.381e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6159,56,0:2.109e-04,1.601e-04:6215:2859,26,0:3300,30,0 MT 16225 . C . . END=16226 GT:DP:MIN_DP:TLOD 0/0:6321:6316:-3.777e+00 -MT 16227 . A C, . base_quality;t_lod CONTQ=93;DP=6424;ECNT=22;MBQ=28,7,0;MFRL=333,330,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.960e-03;SAPP=1.273e-04,2.981e-03,0.997;TLOD=-3.443e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6219,31,0:1.811e-04,1.589e-04:6250:2863,18,0:3356,13,0 +MT 16227 . A C, . base_quality;t_lod CONTQ=93;DP=6424;ECNT=22;MBQ=28,7,0;MFRL=333,330,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.443e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6219,31,0:1.811e-04,1.589e-04:6250:2863,18,0:3356,13,0 MT 16228 . C . . END=16228 GT:DP:MIN_DP:TLOD 0/0:6313:6313:-3.753e+00 -MT 16229 . T C, . base_quality;t_lod CONTQ=93;DP=6422;ECNT=22;MBQ=29,8,0;MFRL=334,424,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.715e-03;SAPP=0.034,6.877e-05,0.966;TLOD=-3.480e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6245,17,0:1.657e-04,1.587e-04:6262:2884,1,0:3361,16,0 +MT 16229 . T C, . base_quality;t_lod CONTQ=93;DP=6422;ECNT=22;MBQ=29,8,0;MFRL=334,424,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6245,17,0:1.657e-04,1.587e-04:6262:2884,1,0:3361,16,0 MT 16230 . A . . END=16230 GT:DP:MIN_DP:TLOD 0/0:7036:7036:-3.349e+00 MT 16231 . T . . END=16231 GT:DP:MIN_DP:TLOD 0/0:6976:6976:-2.885e+00 MT 16232 . C . . END=16233 GT:DP:MIN_DP:TLOD 0/0:7070:7064:-3.466e+00 @@ -6720,32 +6718,32 @@ MT 16519 . T . . END=16519 GT:DP:MIN_DP:TLOD 0/0:6270:6270:1.94 MT 16520 . C . . END=16521 GT:DP:MIN_DP:TLOD 0/0:6268:6250:-3.698e+00 MT 16522 . T . . END=16522 GT:DP:MIN_DP:TLOD 0/0:6218:6218:-3.306e+00 MT 16523 . A . . END=16523 GT:DP:MIN_DP:TLOD 0/0:6189:6189:-3.682e+00 -MT 16524 . A C, . base_quality;t_lod CONTQ=93;DP=2272;ECNT=15;MBQ=28,7,0;MFRL=430,429,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.211e-03;SAPP=5.233e-04,4.716e-04,0.999;TLOD=-3.038e+00,-3.044e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2173,7,0:4.584e-04,4.517e-04:2180:1101,5,0:1072,2,0 -MT 16525 . A C, . base_quality;t_lod CONTQ=93;DP=2235;ECNT=15;MBQ=28,6,0;MFRL=430,16051,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.212e-03;SAPP=1.193e-03,3.351e-04,0.998;TLOD=-2.983e+00,-3.036e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2128,9,0:5.201e-04,4.604e-04:2137:1072,6,0:1056,3,0 -MT 16526 . G T, . base_quality;t_lod CONTQ=93;DP=2184;ECNT=15;MBQ=28,12,0;MFRL=431,16286,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.429e-03;SAPP=7.584e-04,2.066e-04,0.999;TLOD=-3.025e+00,-3.028e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2097,3,0:4.718e-04,4.687e-04:2100:1058,1,0:1039,2,0 -MT 16527 . C T,A, . base_quality;t_lod CONTQ=93;DP=2140;ECNT=15;MBQ=28,12,12,0;MFRL=430,0,16187,0;MMQ=60,60,60,0;MPOS=37,11,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.010,4.861e-04;SAPP=5.956e-04,1.330e-04,0.999;TLOD=-2.853e+00,-2.843e+00,-2.853e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:2056,1,1,0:4.678e-04,4.790e-04,4.669e-04:2058:1035,0,1,0:1021,1,0,0 +MT 16524 . A C, . base_quality;t_lod CONTQ=93;DP=2272;ECNT=15;MBQ=28,7,0;MFRL=430,429,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.038e+00,-3.044e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2173,7,0:4.584e-04,4.517e-04:2180:1101,5,0:1072,2,0 +MT 16525 . A C, . base_quality;t_lod CONTQ=93;DP=2235;ECNT=15;MBQ=28,6,0;MFRL=430,16051,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-2.983e+00,-3.036e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2128,9,0:5.201e-04,4.604e-04:2137:1072,6,0:1056,3,0 +MT 16526 . G T, . base_quality;t_lod CONTQ=93;DP=2184;ECNT=15;MBQ=28,12,0;MFRL=431,16286,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.025e+00,-3.028e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2097,3,0:4.718e-04,4.687e-04:2100:1058,1,0:1039,2,0 +MT 16527 . C T,A, . base_quality;t_lod CONTQ=93;DP=2140;ECNT=15;MBQ=28,12,12,0;MFRL=430,0,16187,0;MMQ=60,60,60,0;MPOS=37,11,0;POPAF=7.30,7.30,7.30;TLOD=-2.853e+00,-2.843e+00,-2.853e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:2056,1,1,0:4.678e-04,4.790e-04,4.669e-04:2058:1035,0,1,0:1021,1,0,0 MT 16528 . C . . END=16528 GT:DP:MIN_DP:TLOD 0/0:2001:2001:-3.276e+00 -MT 16529 . T G, . base_quality;t_lod CONTQ=93;DP=2057;ECNT=15;MBQ=29,4,0;MFRL=429,240,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.527e-03;SAPP=8.315e-04,2.180e-04,0.999;TLOD=-2.997e+00,-3.000e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1962,3,0:5.030e-04,4.995e-04:1965:987,3,0:975,0,0 +MT 16529 . T G, . base_quality;t_lod CONTQ=93;DP=2057;ECNT=15;MBQ=29,4,0;MFRL=429,240,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-2.997e+00,-3.000e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1962,3,0:5.030e-04,4.995e-04:1965:987,3,0:975,0,0 MT 16530 . A . . END=16535 GT:DP:MIN_DP:TLOD 0/0:1792:1672:-3.274e+00 -MT 16536 . C A, . base_quality;t_lod CONTQ=93;DP=1730;ECNT=15;MBQ=28,14,0;MFRL=435,448,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.674e-03;SAPP=2.017e-03,3.001e-04,0.998;TLOD=-2.551e+00,-2.922e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1627,6,0:1.141e-03,5.983e-04:1633:818,4,0:809,2,0 -MT 16537 . C A,T, . base_quality;t_lod CONTQ=93;DP=1685;ECNT=15;MBQ=28,13,0,0;MFRL=435,16288,0,0;MMQ=60,60,0,0;MPOS=21,0,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.010,1.257e-03;SAPP=1.976e-03,1.726e-04,0.998;TLOD=-2.733e+00,-2.736e+00,-2.736e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1589,2,0,0:6.165e-04,6.115e-04,6.116e-04:1591:793,2,0,0:796,0,0,0 +MT 16536 . C A, . base_quality;t_lod CONTQ=93;DP=1730;ECNT=15;MBQ=28,14,0;MFRL=435,448,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-2.551e+00,-2.922e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1627,6,0:1.141e-03,5.983e-04:1633:818,4,0:809,2,0 +MT 16537 . C A,T, . base_quality;t_lod CONTQ=93;DP=1685;ECNT=15;MBQ=28,13,0,0;MFRL=435,16288,0,0;MMQ=60,60,0,0;MPOS=21,0,0;POPAF=7.30,7.30,7.30;TLOD=-2.733e+00,-2.736e+00,-2.736e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1589,2,0,0:6.165e-04,6.115e-04,6.116e-04:1591:793,2,0,0:796,0,0,0 MT 16538 . C . . END=16538 GT:DP:MIN_DP:TLOD 0/0:1542:1542:-3.180e+00 -MT 16539 . A C,T, . base_quality;t_lod CONTQ=93;DP=1591;ECNT=15;MBQ=28,4,14,0;MFRL=437,585,8272,0;MMQ=60,60,60,0;MPOS=7,18,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,5.972e-03;SAPP=1.670e-03,4.745e-04,0.998;TLOD=-2.698e+00,-2.707e+00,-2.710e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1498,9,2,0:6.686e-04,6.540e-04,6.499e-04:1509:749,3,1,0:749,6,1,0 -MT 16540 . C A, . base_quality;t_lod CONTQ=93;DP=1552;ECNT=15;MBQ=28,2,0;MFRL=439,177,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.803e-04;SAPP=8.182e-04,1.869e-04,0.999;TLOD=-2.874e+00,-2.876e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1469,1,0:6.673e-04,6.653e-04:1470:732,1,0:737,0,0 -MT 16541 . A C,T, . base_quality;t_lod CONTQ=93;DP=1510;ECNT=15;MBQ=28,5,0,0;MFRL=444,16182,0,0;MMQ=60,60,0,0;MPOS=8,0,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.298e-03;SAPP=3.944e-03,3.672e-04,0.996;TLOD=-2.209e+00,-2.703e+00,-2.702e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1420,9,0,0:1.248e-03,6.606e-04,6.615e-04:1429:704,3,0,0:716,6,0,0 +MT 16539 . A C,T, . base_quality;t_lod CONTQ=93;DP=1591;ECNT=15;MBQ=28,4,14,0;MFRL=437,585,8272,0;MMQ=60,60,60,0;MPOS=7,18,0;POPAF=7.30,7.30,7.30;TLOD=-2.698e+00,-2.707e+00,-2.710e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1498,9,2,0:6.686e-04,6.540e-04,6.499e-04:1509:749,3,1,0:749,6,1,0 +MT 16540 . C A, . base_quality;t_lod CONTQ=93;DP=1552;ECNT=15;MBQ=28,2,0;MFRL=439,177,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-2.874e+00,-2.876e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1469,1,0:6.673e-04,6.653e-04:1470:732,1,0:737,0,0 +MT 16541 . A C,T, . base_quality;t_lod CONTQ=93;DP=1510;ECNT=15;MBQ=28,5,0,0;MFRL=444,16182,0,0;MMQ=60,60,0,0;MPOS=8,0,0;POPAF=7.30,7.30,7.30;TLOD=-2.209e+00,-2.703e+00,-2.702e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1420,9,0,0:1.248e-03,6.606e-04,6.615e-04:1429:704,3,0,0:716,6,0,0 MT 16542 . C . . END=16543 GT:DP:MIN_DP:TLOD 0/0:1324:1283:-3.137e+00 MT 16544 . T . . END=16544 GT:DP:MIN_DP:TLOD 0/0:1249:1249:-2.243e+00 -MT 16545 . T G, . base_quality;t_lod CONTQ=93;DP=1329;ECNT=15;MBQ=27,10,0;MFRL=461,8257,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.610e-03;SAPP=5.932e-04,4.320e-04,0.999;TLOD=-2.801e+00,-2.804e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1240,2,0:7.913e-04,7.854e-04:1242:634,2,0:606,0,0 +MT 16545 . T G, . base_quality;t_lod CONTQ=93;DP=1329;ECNT=15;MBQ=27,10,0;MFRL=461,8257,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-2.801e+00,-2.804e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1240,2,0:7.913e-04,7.854e-04:1242:634,2,0:606,0,0 MT 16546 . C . . END=16547 GT:DP:MIN_DP:TLOD 0/0:1151:1128:-3.074e+00 MT 16548 . C . . END=16548 GT:DP:MIN_DP:TLOD 0/0:1090:1090:-2.454e+00 MT 16549 . C . . END=16549 GT:DP:MIN_DP:TLOD 0/0:1048:1048:-3.016e+00 -MT 16550 . T A, . t_lod CONTQ=93;DP=1109;ECNT=15;MBQ=28,28,0;MFRL=458,207,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.00,9.671e-04;SAPP=3.429e-04,7.453e-04,0.999;TLOD=-2.318e+00,-2.726e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1033,1,0:1.611e-03,9.402e-04:1034:524,1,0:509,0,0 +MT 16550 . T A, . t_lod CONTQ=93;DP=1109;ECNT=15;MBQ=28,28,0;MFRL=458,207,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-2.318e+00,-2.726e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1033,1,0:1.611e-03,9.402e-04:1034:524,1,0:509,0,0 MT 16551 . T . . END=16552 GT:DP:MIN_DP:TLOD 0/0:934:908:-2.941e+00 -MT 16553 . A C, . base_quality;t_lod CONTQ=93;DP=991;ECNT=15;MBQ=28,7,0;MFRL=468,16212,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.696e-03;SAPP=0.069,2.982e-04,0.931;TLOD=-2.654e+00,-2.668e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:890,6,0:1.111e-03,1.076e-03:896:449,2,0:441,4,0 +MT 16553 . A C, . base_quality;t_lod CONTQ=93;DP=991;ECNT=15;MBQ=28,7,0;MFRL=468,16212,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-2.654e+00,-2.668e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:890,6,0:1.111e-03,1.076e-03:896:449,2,0:441,4,0 MT 16554 . A . . END=16555 GT:DP:MIN_DP:TLOD 0/0:790:766:-2.904e+00 -MT 16556 . A C, . base_quality;t_lod CONTQ=93;DP=856;ECNT=15;MBQ=28,7,0;MFRL=483,16173,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.963e-03;SAPP=1.735e-03,6.174e-04,0.998;TLOD=-2.224e+00,-2.600e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:754,3,0:2.164e-03,1.258e-03:757:382,2,0:372,1,0 +MT 16556 . A C, . base_quality;t_lod CONTQ=93;DP=856;ECNT=15;MBQ=28,7,0;MFRL=483,16173,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-2.224e+00,-2.600e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:754,3,0:2.164e-03,1.258e-03:757:382,2,0:372,1,0 MT 16557 . A . . END=16557 GT:DP:MIN_DP:TLOD 0/0:675:675:-2.796e+00 -MT 16558 . G T, . base_quality;t_lod CONTQ=93;DP=755;ECNT=15;MBQ=27,2,0;MFRL=480,160,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.488e-03;SAPP=1.539e-03,4.317e-04,0.998;TLOD=-2.544e+00,-2.547e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:671,1,0:1.428e-03,1.418e-03:672:335,0,0:336,1,0 +MT 16558 . G T, . base_quality;t_lod CONTQ=93;DP=755;ECNT=15;MBQ=27,2,0;MFRL=480,160,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;TLOD=-2.544e+00,-2.547e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:671,1,0:1.428e-03,1.418e-03:672:335,0,0:336,1,0 MT 16559 . A . . END=16559 GT:DP:MIN_DP:TLOD 0/0:4561:4561:-3.463e+00 MT 16560 . C . . END=16560 GT:DP:MIN_DP:TLOD 0/0:4477:4477:-2.955e+00 MT 16561 . A . . END=16569 GT:DP:MIN_DP:TLOD 0/0:4202:3967:-3.626e+00 diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12878.MT.filtered.g.vcf.idx b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12878.MT.filtered.g.vcf.idx index f6630772df3cf3c3c056d0599057e049f121702b..c1e5b291d422be2fc24697387a2fca3be2612fef 100644 GIT binary patch literal 216 zcmXv|OA5j;5S`-2E4c6q85G3gN~!o+)KwL?Z8NQ*v4Kol&*Eh~hh9TGfGO312k$-R z&Aep4J_i6W@FzEsyi8(Yo==2o}vxoVKteC^H9Wz@Q)o?lA;uCUcl}>^lbp1_t#8y Y<^I$0I05(s(9!YFe~i4f?8QI(1sSkA%K!iX literal 3791 zcmZ9Odu&xz7RJ}8gECG<1Vu+cke57q?|z@NL8P^<+JSZ^dJCBtS{^92lz!jc zSMKe;s$6WXmnx3pLQAQDb*sw#c0JQX8N1A~q>0_Zl1p@;hr8O#Y3@pi5cxjbO6^>*iArUTOMMTnisbl9- zr!h(6v@`I_3J)Na)YzMW6eP8^+C(OGB4r>#I4jeQr2^5hm9e+!Dnu*se~((E1mTKE z8*fb-okYAsSuM3sH-|qjv^9}U!;=xkQhKWp1(zwNC>BwqOvSAyWTavrr%RL|r{UJ( zOR@w7HL+CwNNh;eN-d0aY547^idB)YmAZAnC+dDg&{87ltn=*f`~^Y?C87cxE0>1O zP&q)tsEc!cb?|@+D^so2Hc*3;siq?M)lOC_#4(r< zE)KeK&M8eiIGkja2k8@SB%|~&Su1q#5E-A#&4i3~j5e(DfL2bZ71dct&ss0@+Bj%^ zl&^y^3H2&hbj@0?b5tm3jgTT=-{8Rr^jCFcnzhbWN2WxG%t#?}S`*H~NU!sLS?hH^ zi%@l=aQUitGofZiYm@hz#GtLp`%QM!&gZl`X)_yFZZMyPPW)P*_bWoivDB5zl4vnB zKs{PAf0_wZF0QU5<_WY?ID}lCh6+L8lHv4oIQYQLl9j8*!O0MY)KMgJouU%om?S=( zBWYVDmjib=f4yYl+eulOI;>WqNYY`>1johEyHZer6ZFp zBPC6BO_U7hEhD9TULCFuur>L*GB!5OB`=dLBahR_RWK=4rC)1OPHxzO19gE#~16F?VUh03z|Q|-q^rw<9MPE;A;oM zn6;nT;)z5GY!7V7E@tnXO7s*oy@+T1ad3doV~FM8u|$K%VXs@6U3@yxjl-}WyrqL# zh4!d^d% zS=jec*ahgd@7uC{ht4FrZ4%LgLpV@;PM?gJ#}SP}KTMs$EUc~j4bdc=>72JRf16R8 z<);zdabL#%4gaBLPv4ZWZfNFVeOG8Md_un8z}JJw=fm%qO~LbI*g@FI|6ukKbX%e6 zK|KE(!LiiB&+-YV7i`@v%!0pvBHlO8Ao^qxv)y2$!G>T|pXKouG|RB|@vAa+??l9h zI_N)T>|1E=0q=MqV|CDc39EUB*+%5Ky+Aa-NHqOcG&Md~BL6jK;e4i}F9*@=DZ6_L z(YUEZ`&*fXm={eZ`U)0L%-HRdh!%o9H;ma@NZM2JShmcz|^)5yx+l!+fwm?_qWY z_V@tLJy^fBhS&ZJ=XFdi&Ii`s&a4Z%8SsBJ*ugqxJz)RG^Ao7oiz_pB*nnB|W(x)Y zKI^7p)=47#FsHxoV_hHCeuEls67cy9vry*+U};@C@Vo}=|GJG?i1{;5v~xC5VJwCjKI_qAJK?_;eC*e(3w17lJr8^0{cMi{G@ruO z60dy{@y(lyT+YEc-N`J(^70(a-m}sFiW|FAzO(TBJZxz6aAby>Ah(|Y2JNrt diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12891.MT.filtered.g.vcf b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12891.MT.filtered.g.vcf index 18d61f93cfb..307fcf4ca26 100644 --- a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12891.MT.filtered.g.vcf +++ b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12891.MT.filtered.g.vcf @@ -63,8 +63,6 @@ ##INFO= ##INFO= ##INFO= -##INFO= -##INFO= ##INFO= ##INFO= ##INFO= @@ -178,10 +176,10 @@ MT 30 . T . . END=30 GT:DP:MIN_DP:TLOD 0/0:1303:1303:-2.919e+00 MT 31 . C . . END=33 GT:DP:MIN_DP:TLOD 0/0:1390:1367:-3.165e+00 MT 34 . G . . END=35 GT:DP:MIN_DP:TLOD 0/0:1559:1521:-2.952e+00 MT 36 . G . . END=37 GT:DP:MIN_DP:TLOD 0/0:1662:1647:-3.186e+00 -MT 38 . G A, . base_quality;t_lod CONTQ=93;DP=1595;ECNT=3;MBQ=29,16,0;MFRL=511,402,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.277e-04;SAPP=5.026e-04,2.182e-04,0.999;TLOD=-2.901e+00,-2.902e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1592,1,0:6.283e-04,6.265e-04:1593:697,0,0:895,1,0 +MT 38 . G A, . base_quality;t_lod CONTQ=93;DP=1595;ECNT=3;MBQ=29,16,0;MFRL=511,402,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-2.901e+00,-2.902e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1592,1,0:6.283e-04,6.265e-04:1593:697,0,0:895,1,0 MT 39 . C . . END=43 GT:DP:MIN_DP:TLOD 0/0:1618:1532:-3.220e+00 -MT 44 . C A, . base_quality;t_lod CONTQ=93;DP=1862;ECNT=3;MBQ=29,15,0;MFRL=503,16179,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.00,5.379e-04;SAPP=1.524e-04,6.091e-04,0.999;TLOD=-2.968e+00,-2.969e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1858,1,0:5.382e-04,5.369e-04:1859:821,0,0:1037,1,0 -MT 45 . A C, . base_quality;t_lod CONTQ=93;DP=1905;ECNT=3;MBQ=29,10,0;MFRL=502,16210,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.415e-03;SAPP=2.437e-04,4.799e-03,0.995;TLOD=-2.917e+00,-2.965e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1804,8,0:6.064e-04,5.416e-04:1812:797,4,0:1007,4,0 +MT 44 . C A, . base_quality;t_lod CONTQ=93;DP=1862;ECNT=3;MBQ=29,15,0;MFRL=503,16179,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-2.968e+00,-2.969e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1858,1,0:5.382e-04,5.369e-04:1859:821,0,0:1037,1,0 +MT 45 . A C, . base_quality;t_lod CONTQ=93;DP=1905;ECNT=3;MBQ=29,10,0;MFRL=502,16210,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-2.917e+00,-2.965e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1804,8,0:6.064e-04,5.416e-04:1812:797,4,0:1007,4,0 MT 46 . T . . END=46 GT:DP:MIN_DP:TLOD 0/0:2154:2154:-2.963e+00 MT 47 . G . . END=48 GT:DP:MIN_DP:TLOD 0/0:2216:2194:-3.332e+00 MT 49 . A . . END=49 GT:DP:MIN_DP:TLOD 0/0:2288:2288:-2.831e+00 @@ -241,41 +239,41 @@ MT 156 . A . . END=156 GT:DP:MIN_DP:TLOD 0/0:7156:7156:-3.483e+00 MT 157 . T . . END=159 GT:DP:MIN_DP:TLOD 0/0:7186:7186:-3.816e+00 MT 160 . A . . END=160 GT:DP:MIN_DP:TLOD 0/0:7191:7191:-2.839e+00 MT 161 . T . . END=164 GT:DP:MIN_DP:TLOD 0/0:7148:7101:-3.841e+00 -MT 165 . A C, . base_quality;t_lod CONTQ=93;DP=6605;ECNT=28;MBQ=29,7,0;MFRL=455,421,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.599e-03;SAPP=1.202e-04,6.633e-03,0.993;TLOD=-3.444e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6394,36,0:1.805e-04,1.546e-04:6430:3267,22,0:3127,14,0 +MT 165 . A C, . base_quality;t_lod CONTQ=93;DP=6605;ECNT=28;MBQ=29,7,0;MFRL=455,421,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.444e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6394,36,0:1.805e-04,1.546e-04:6430:3267,22,0:3127,14,0 MT 166 . C . . END=186 GT:DP:MIN_DP:TLOD 0/0:6353:6082:-3.803e+00 -MT 187 . G T, . base_quality;t_lod CONTQ=93;DP=6157;ECNT=28;MBQ=27,13,0;MFRL=415,508,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.163e-03;SAPP=9.507e-04,8.000e-05,0.999;TLOD=-3.478e+00,-3.481e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6014,7,0:1.663e-04,1.652e-04:6021:3055,3,0:2959,4,0 +MT 187 . G T, . base_quality;t_lod CONTQ=93;DP=6157;ECNT=28;MBQ=27,13,0;MFRL=415,508,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.481e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6014,7,0:1.663e-04,1.652e-04:6021:3055,3,0:2959,4,0 MT 188 . A . . END=189 GT:DP:MIN_DP:TLOD 0/0:6039:6027:-3.733e+00 MT 190 . C . . END=190 GT:DP:MIN_DP:TLOD 0/0:5987:5987:-3.404e+00 MT 191 . A . . END=192 GT:DP:MIN_DP:TLOD 0/0:5960:5942:-3.695e+00 -MT 193 . A C, . base_quality;t_lod CONTQ=93;DP=5973;ECNT=28;MBQ=29,9,0;MFRL=404,484,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.082e-03;SAPP=4.844e-04,1.829e-04,0.999;TLOD=-3.453e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5823,18,0:1.765e-04,1.701e-04:5841:2958,8,0:2865,10,0 +MT 193 . A C, . base_quality;t_lod CONTQ=93;DP=5973;ECNT=28;MBQ=29,9,0;MFRL=404,484,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.453e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5823,18,0:1.765e-04,1.701e-04:5841:2958,8,0:2865,10,0 MT 194 . C . . END=194 GT:DP:MIN_DP:TLOD 0/0:5880:5880:-3.739e+00 -MT 195 . T C, . PASS CONTQ=93;DP=5920;ECNT=28;MBQ=12,29,0;MFRL=8207,402,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.990,0.990,1.000;SAPP=0.031,0.024,0.945;TLOD=19342.45,-3.465e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2,5784,0:1.000,1.714e-04:5786:1,2939,0:1,2845,0 +MT 195 . T C, . PASS CONTQ=93;DP=5920;ECNT=28;MBQ=12,29,0;MFRL=8207,402,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=19342.45,-3.465e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2,5784,0:1.000,1.714e-04:5786:1,2939,0:1,2845,0 MT 196 . T . . END=200 GT:DP:MIN_DP:TLOD 0/0:5763:5713:-3.758e+00 -MT 201 . A C, . base_quality;t_lod CONTQ=93;DP=5753;ECNT=28;MBQ=29,9,0;MFRL=395,495,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.020e-03;SAPP=7.698e-04,1.516e-04,0.999;TLOD=-2.967e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5613,17,0:4.249e-04,1.766e-04:5630:2825,11,0:2788,6,0 +MT 201 . A C, . base_quality;t_lod CONTQ=93;DP=5753;ECNT=28;MBQ=29,9,0;MFRL=395,495,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-2.967e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5613,17,0:4.249e-04,1.766e-04:5630:2825,11,0:2788,6,0 MT 202 . A . . END=202 GT:DP:MIN_DP:TLOD 0/0:5638:5638:-3.706e+00 -MT 203 . G T, . base_quality;t_lod CONTQ=93;DP=5698;ECNT=28;MBQ=29,14,0;MFRL=392,470,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.075e-03;SAPP=7.202e-04,8.699e-05,0.999;TLOD=-3.446e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5574,6,0:1.789e-04,1.780e-04:5580:2805,4,0:2769,2,0 +MT 203 . G T, . base_quality;t_lod CONTQ=93;DP=5698;ECNT=28;MBQ=29,14,0;MFRL=392,470,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-3.446e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5574,6,0:1.789e-04,1.780e-04:5580:2805,4,0:2769,2,0 MT 204 . T . . END=238 GT:DP:MIN_DP:TLOD 0/0:5125:4666:-3.738e+00 -MT 239 . T C, . base_quality;t_lod CONTQ=93;DP=4739;ECNT=28;MBQ=30,10,0;MFRL=345,341,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.089e-03;SAPP=1.660e-04,3.100e-04,1.000;TLOD=-3.354e+00,-3.366e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4585,5,0:2.213e-04,2.153e-04:4590:2191,3,0:2394,2,0 +MT 239 . T C, . base_quality;t_lod CONTQ=93;DP=4739;ECNT=28;MBQ=30,10,0;MFRL=345,341,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-3.354e+00,-3.366e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4585,5,0:2.213e-04,2.153e-04:4590:2191,3,0:2394,2,0 MT 240 . A . . END=243 GT:DP:MIN_DP:TLOD 0/0:4562:4530:-3.659e+00 MT 244 . A . . END=244 GT:DP:MIN_DP:TLOD 0/0:4506:4506:-3.355e+00 MT 245 . T . . END=245 GT:DP:MIN_DP:TLOD 0/0:4469:4469:-3.611e+00 -MT 246 . T G, . base_quality;t_lod CONTQ=93;DP=4539;ECNT=28;MBQ=29,9,0;MFRL=340,388,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.175e-03;SAPP=3.205e-04,4.052e-04,0.999;TLOD=-3.331e+00,-3.347e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4395,14,0:2.336e-04,2.248e-04:4409:2077,7,0:2318,7,0 +MT 246 . T G, . base_quality;t_lod CONTQ=93;DP=4539;ECNT=28;MBQ=29,9,0;MFRL=340,388,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.331e+00,-3.347e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4395,14,0:2.336e-04,2.248e-04:4409:2077,7,0:2318,7,0 MT 247 . G . . END=248 GT:DP:MIN_DP:TLOD 0/0:4390:4377:-3.629e+00 MT 249 . A . . END=249 GT:DP:MIN_DP:TLOD 0/0:4344:4344:-3.418e+00 MT 250 . T . . END=252 GT:DP:MIN_DP:TLOD 0/0:4259:4256:-3.630e+00 MT 253 . C . . END=254 GT:DP:MIN_DP:TLOD 0/0:4229:4213:-3.369e+00 -MT 255 . G T, . base_quality;t_lod CONTQ=93;DP=4305;ECNT=28;MBQ=29,14,0;MFRL=336,342,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.567e-04;SAPP=0.019,5.326e-05,0.981;TLOD=-3.141e+00,-3.325e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4177,4,0:3.351e-04,2.368e-04:4181:1947,3,0:2230,1,0 +MT 255 . G T, . base_quality;t_lod CONTQ=93;DP=4305;ECNT=28;MBQ=29,14,0;MFRL=336,342,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.141e+00,-3.325e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4177,4,0:3.351e-04,2.368e-04:4181:1947,3,0:2230,1,0 MT 256 . C . . END=256 GT:DP:MIN_DP:TLOD 0/0:4177:4177:-3.563e+00 MT 257 . A . . END=257 GT:DP:MIN_DP:TLOD 0/0:4149:4149:-3.479e+00 MT 258 . C . . END=259 GT:DP:MIN_DP:TLOD 0/0:4103:4085:-3.610e+00 MT 260 . G . . END=260 GT:DP:MIN_DP:TLOD 0/0:4039:4039:-3.207e+00 MT 261 . C . . END=261 GT:DP:MIN_DP:TLOD 0/0:4080:4080:-3.580e+00 -MT 262 . C A, . base_quality;t_lod CONTQ=93;DP=4152;ECNT=28;MBQ=24,13,0;MFRL=334,391,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.240e-03;SAPP=1.537e-03,9.638e-05,0.998;TLOD=-3.155e+00,-3.309e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4028,5,0:3.337e-04,2.456e-04:4033:1844,1,0:2184,4,0 -MT 263 . A G, . PASS CONTQ=93;DP=4128;ECNT=28;MBQ=13,28,0;MFRL=282,334,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.026,0.027,0.947;TLOD=12507.85,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,3995,0:0.999,2.476e-04:3999:2,1829,0:2,2166,0 +MT 262 . C A, . base_quality;t_lod CONTQ=93;DP=4152;ECNT=28;MBQ=24,13,0;MFRL=334,391,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.155e+00,-3.309e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4028,5,0:3.337e-04,2.456e-04:4033:1844,1,0:2184,4,0 +MT 263 . A G, . PASS CONTQ=93;DP=4128;ECNT=28;MBQ=13,28,0;MFRL=282,334,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=12507.85,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,3995,0:0.999,2.476e-04:3999:2,1829,0:2,2166,0 MT 264 . C . . END=265 GT:DP:MIN_DP:TLOD 0/0:3971:3958:-3.603e+00 MT 266 . T . . END=267 GT:DP:MIN_DP:TLOD 0/0:3919:3908:-3.461e+00 MT 268 . C . . END=270 GT:DP:MIN_DP:TLOD 0/0:3911:3883:-3.587e+00 -MT 271 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=3959;ECNT=28;MBQ=29,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=1.590e-04,5.457e-05,1.000;TLOD=-3.292e+00,-3.292e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3874,0,0:2.554e-04,2.554e-04:3874:1739,0,0:2135,0,0 +MT 271 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=3959;ECNT=28;MBQ=29,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.292e+00,-3.292e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3874,0,0:2.554e-04,2.554e-04:3874:1739,0,0:2135,0,0 MT 272 . A . . END=279 GT:DP:MIN_DP:TLOD 0/0:3735:3621:-3.580e+00 MT 280 . C . . END=280 GT:DP:MIN_DP:TLOD 0/0:3627:3627:-3.480e+00 MT 281 . A . . END=283 GT:DP:MIN_DP:TLOD 0/0:3580:3578:-3.556e+00 @@ -284,22 +282,22 @@ MT 285 . C . . END=286 GT:DP:MIN_DP:TLOD 0/0:3531:3525:-3.547e+00 MT 287 . A . . END=288 GT:DP:MIN_DP:TLOD 0/0:3505:3492:-3.423e+00 MT 289 . A . . END=289 GT:DP:MIN_DP:TLOD 0/0:3472:3472:-3.519e+00 MT 290 . A . . END=293 GT:DP:MIN_DP:TLOD 0/0:3394:3348:-3.476e+00 -MT 294 . T TACACCAAA, . t_lod CONTQ=93;DP=3704;ECNT=28;MBQ=28,29,0;MFRL=329,360,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.842e-04;SAPP=2.321e-03,5.238e-05,0.998;TLOD=-3.255e+00,-3.255e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3518,1,0:2.782e-04,2.779e-04:3519:1519,1,0:1999,0,0 +MT 294 . T TACACCAAA, . t_lod CONTQ=93;DP=3704;ECNT=28;MBQ=28,29,0;MFRL=329,360,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.255e+00,-3.255e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3518,1,0:2.782e-04,2.779e-04:3519:1519,1,0:1999,0,0 MT 295 . C . . END=296 GT:DP:MIN_DP:TLOD 0/0:3454:3453:-3.543e+00 -MT 297 . A AC, . t_lod CONTQ=93;DP=3699;ECNT=28;MBQ=28,22,0;MFRL=329,324,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.457e-03;SAPP=5.290e-04,1.320e-03,0.998;TLOD=-3.238e+00,-3.249e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3463,19,0:2.897e-04,2.822e-04:3482:1471,12,0:1992,7,0 -MT 298 . C A, . base_quality;t_lod CONTQ=93;DP=3683;ECNT=28;MBQ=29,7,0;MFRL=328,434,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.131e-03;SAPP=4.867e-03,9.177e-05,0.995;TLOD=-3.079e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3534,4,0:3.901e-04,2.786e-04:3538:1516,0,0:2018,4,0 -MT 299 . C A, . base_quality;t_lod CONTQ=93;DP=3670;ECNT=28;MBQ=28,2,0;MFRL=329,345,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.701e-03;SAPP=0.126,6.511e-05,0.873;TLOD=-3.197e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3522,6,0:3.183e-04,2.798e-04:3528:1501,3,0:2021,3,0 -MT 300 . A C, . base_quality;t_lod CONTQ=93;DP=3688;ECNT=28;MBQ=28,4,0;MFRL=329,319,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.409e-03;SAPP=9.940e-04,1.812e-04,0.999;TLOD=-3.251e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3544,5,0:2.805e-04,2.787e-04:3549:1493,4,0:2051,1,0 -MT 301 . A AC,AT,ACC,C, . base_quality;t_lod CONTQ=93;DP=3653;ECNT=28;MBQ=26,15,22,13,7,0;MFRL=329,336,344,325,350,0;MMQ=60,60,60,60,60,0;MPOS=28,15,31,9,0;POPAF=7.30,7.30,7.30,7.30,7.30;SAAF=0.061,0.010,0.058;SAPP=2.987e-08,1.000,6.468e-05;TLOD=6.21,-2.826e+00,-4.911e-01,-2.834e+00,-2.850e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:3125,192,9,97,29,0:8.308e-03,2.994e-04,2.969e-03,2.939e-04,2.826e-04:3452:1288,103,9,36,14,0:1837,89,0,61,15,0 -MT 302 . A AC,C,ACC,ACCC,ACCACCCCCC,ACCCATAACAAAAAATTTCCACCAAAC,ACCCATAACAAAAAATTTCCACCAAACC,ACCCATAACAAAAAATTTCCACCAAACCC, . PASS CONTQ=93;DP=3624;ECNT=28;MBQ=29,22,29,20,23,30,0,0,0,0;MFRL=336,330,337,321,320,277,415,0,0,0;MMQ=60,60,60,60,60,60,60,0,0,0;MPOS=43,27,41,29,11,0,0,0,0;POPAF=7.30,7.30,7.30,7.30,7.30,7.30,7.30,7.30,7.30;SAAF=0.970,0.343,0.965;SAPP=0.00,1.00,0.00;TLOD=2821.14,72.50,933.64,73.32,42.65,-2.551e+00,-2.564e+00,-2.584e+00,-2.593e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5/6/7/8/9:50,1395,324,589,73,53,1,0,0,0:0.632,0.064,0.257,0.025,0.012,3.141e-04,3.040e-04,2.900e-04,2.836e-04:2485:29,546,161,239,35,34,1,0,0,0:21,849,163,350,38,19,0,0,0,0 -MT 303 . C A,CCCCA,CCCCCA, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3665;ECNT=28;MBQ=29,15,16,14,0;MFRL=329,326,306,391,0;MMQ=60,60,60,60,0;MPOS=2,7,11,0;POPAF=7.30,7.30,7.30,7.30;SAAF=0.00,0.010,3.301e-03;SAPP=1.000,2.864e-14,5.607e-10;TLOD=-2.733e+00,-2.926e+00,-2.756e+00,-2.944e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4:3321,11,9,19,0:4.706e-04,2.973e-04,4.425e-04,2.849e-04:3360:1357,8,6,9,0:1964,3,3,10,0 +MT 297 . A AC, . t_lod CONTQ=93;DP=3699;ECNT=28;MBQ=28,22,0;MFRL=329,324,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.238e+00,-3.249e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3463,19,0:2.897e-04,2.822e-04:3482:1471,12,0:1992,7,0 +MT 298 . C A, . base_quality;t_lod CONTQ=93;DP=3683;ECNT=28;MBQ=29,7,0;MFRL=328,434,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.079e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3534,4,0:3.901e-04,2.786e-04:3538:1516,0,0:2018,4,0 +MT 299 . C A, . base_quality;t_lod CONTQ=93;DP=3670;ECNT=28;MBQ=28,2,0;MFRL=329,345,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;TLOD=-3.197e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3522,6,0:3.183e-04,2.798e-04:3528:1501,3,0:2021,3,0 +MT 300 . A C, . base_quality;t_lod CONTQ=93;DP=3688;ECNT=28;MBQ=28,4,0;MFRL=329,319,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.251e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3544,5,0:2.805e-04,2.787e-04:3549:1493,4,0:2051,1,0 +MT 301 . A AC,AT,ACC,C, . base_quality;t_lod CONTQ=93;DP=3653;ECNT=28;MBQ=26,15,22,13,7,0;MFRL=329,336,344,325,350,0;MMQ=60,60,60,60,60,0;MPOS=28,15,31,9,0;POPAF=7.30,7.30,7.30,7.30,7.30;TLOD=6.21,-2.826e+00,-4.911e-01,-2.834e+00,-2.850e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:3125,192,9,97,29,0:8.308e-03,2.994e-04,2.969e-03,2.939e-04,2.826e-04:3452:1288,103,9,36,14,0:1837,89,0,61,15,0 +MT 302 . A AC,C,ACC,ACCC,ACCACCCCCC,ACCCATAACAAAAAATTTCCACCAAAC,ACCCATAACAAAAAATTTCCACCAAACC,ACCCATAACAAAAAATTTCCACCAAACCC, . PASS CONTQ=93;DP=3624;ECNT=28;MBQ=29,22,29,20,23,30,0,0,0,0;MFRL=336,330,337,321,320,277,415,0,0,0;MMQ=60,60,60,60,60,60,60,0,0,0;MPOS=43,27,41,29,11,0,0,0,0;POPAF=7.30,7.30,7.30,7.30,7.30,7.30,7.30,7.30,7.30;TLOD=2821.14,72.50,933.64,73.32,42.65,-2.551e+00,-2.564e+00,-2.584e+00,-2.593e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5/6/7/8/9:50,1395,324,589,73,53,1,0,0,0:0.632,0.064,0.257,0.025,0.012,3.141e-04,3.040e-04,2.900e-04,2.836e-04:2485:29,546,161,239,35,34,1,0,0,0:21,849,163,350,38,19,0,0,0,0 +MT 303 . C A,CCCCA,CCCCCA, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3665;ECNT=28;MBQ=29,15,16,14,0;MFRL=329,326,306,391,0;MMQ=60,60,60,60,0;MPOS=2,7,11,0;POPAF=7.30,7.30,7.30,7.30;TLOD=-2.733e+00,-2.926e+00,-2.756e+00,-2.944e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4:3321,11,9,19,0:4.706e-04,2.973e-04,4.425e-04,2.849e-04:3360:1357,8,6,9,0:1964,3,3,10,0 MT 304 . C . . END=304 GT:DP:MIN_DP:TLOD 0/0:3344:3344:-3.468e+00 MT 305 . C . . END=305 GT:DP:MIN_DP:TLOD 0/0:3347:3347:-3.506e+00 -MT 306 . C A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3685;ECNT=28;MBQ=29,6,0;MFRL=329,405,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.669e-03;SAPP=0.996,2.180e-07,4.423e-03;TLOD=-3.196e+00,-3.259e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3590,6,0:3.182e-04,2.755e-04:3596:1475,4,0:2115,2,0 +MT 306 . C A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3685;ECNT=28;MBQ=29,6,0;MFRL=329,405,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.196e+00,-3.259e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3590,6,0:3.182e-04,2.755e-04:3596:1475,4,0:2115,2,0 MT 307 . C . . END=307 GT:DP:MIN_DP:TLOD 0/0:3337:3337:-3.097e+00 MT 308 . C . . END=308 GT:DP:MIN_DP:TLOD 0/0:3353:3353:-3.513e+00 MT 309 . C . . END=309 GT:DP:MIN_DP:TLOD 0/0:3322:3322:-3.200e+00 -MT 310 . T C,TC, . PASS CONTQ=93;DP=3677;ECNT=28;MBQ=2,23,25,0;MFRL=185,304,331,0;MMQ=60,60,60,0;MPOS=3,30,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,1.000;SAPP=0.022,0.036,0.943;TLOD=43.14,13739.28,-3.082e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1,131,3334,0:0.016,0.984,2.759e-04:3466:1,74,1339,0:0,57,1995,0 +MT 310 . T C,TC, . PASS CONTQ=93;DP=3677;ECNT=28;MBQ=2,23,25,0;MFRL=185,304,331,0;MMQ=60,60,60,0;MPOS=3,30,0;POPAF=7.30,7.30,7.30;TLOD=43.14,13739.28,-3.082e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1,131,3334,0:0.016,0.984,2.759e-04:3466:1,74,1339,0:0,57,1995,0 MT 311 . C . . END=312 GT:DP:MIN_DP:TLOD 0/0:3330:3324:-3.520e+00 MT 313 . C . . END=315 GT:DP:MIN_DP:TLOD 0/0:3352:3340:-3.407e+00 MT 316 . G . . END=317 GT:DP:MIN_DP:TLOD 0/0:3397:3374:-3.533e+00 @@ -310,24 +308,24 @@ MT 323 . G . . END=324 GT:DP:MIN_DP:TLOD 0/0:3594:3566:-3.549e+00 MT 325 . C . . END=325 GT:DP:MIN_DP:TLOD 0/0:3657:3657:-3.355e+00 MT 326 . A . . END=327 GT:DP:MIN_DP:TLOD 0/0:3700:3688:-3.562e+00 MT 328 . A . . END=328 GT:DP:MIN_DP:TLOD 0/0:3731:3731:-3.468e+00 -MT 329 . G T, . base_quality;t_lod CONTQ=93;DP=3901;ECNT=28;MBQ=29,14,0;MFRL=331,8136,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.056e-03;SAPP=6.429e-04,1.512e-04,0.999;TLOD=-3.069e+00,-3.283e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3784,4,0:4.104e-04,2.608e-04:3788:1516,1,0:2268,3,0 +MT 329 . G T, . base_quality;t_lod CONTQ=93;DP=3901;ECNT=28;MBQ=29,14,0;MFRL=331,8136,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.069e+00,-3.283e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3784,4,0:4.104e-04,2.608e-04:3788:1516,1,0:2268,3,0 MT 330 . C . . END=330 GT:DP:MIN_DP:TLOD 0/0:3795:3795:-3.416e+00 MT 331 . A . . END=333 GT:DP:MIN_DP:TLOD 0/0:3851:3825:-3.586e+00 -MT 334 . T C, . base_quality;t_lod CONTQ=93;DP=4047;ECNT=28;MBQ=30,10,0;MFRL=332,357,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.010e-03;SAPP=2.049e-04,3.944e-04,0.999;TLOD=-3.299e+00,-3.300e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3958,4,0:2.515e-04,2.503e-04:3962:1608,1,0:2350,3,0 +MT 334 . T C, . base_quality;t_lod CONTQ=93;DP=4047;ECNT=28;MBQ=30,10,0;MFRL=332,357,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.299e+00,-3.300e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3958,4,0:2.515e-04,2.503e-04:3962:1608,1,0:2350,3,0 MT 335 . A . . END=335 GT:DP:MIN_DP:TLOD 0/0:3914:3914:-3.473e+00 -MT 336 . A C, . base_quality;t_lod CONTQ=93;DP=4093;ECNT=28;MBQ=29,10,0;MFRL=331,364,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.520e-03;SAPP=2.898e-04,6.454e-04,0.999;TLOD=-3.189e+00,-3.302e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3958,10,0:3.195e-04,2.493e-04:3968:1592,6,0:2366,4,0 +MT 336 . A C, . base_quality;t_lod CONTQ=93;DP=4093;ECNT=28;MBQ=29,10,0;MFRL=331,364,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.189e+00,-3.302e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3958,10,0:3.195e-04,2.493e-04:3968:1592,6,0:2366,4,0 MT 337 . A . . END=345 GT:DP:MIN_DP:TLOD 0/0:4062:3973:-3.621e+00 MT 346 . T . . END=346 GT:DP:MIN_DP:TLOD 0/0:4186:4186:-3.413e+00 MT 347 . G . . END=347 GT:DP:MIN_DP:TLOD 0/0:4196:4196:-3.620e+00 -MT 348 . C T, . t_lod CONTQ=93;DP=4362;ECNT=28;MBQ=29,27,0;MFRL=333,401,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.062e-04;SAPP=1.250e-03,7.100e-05,0.999;TLOD=-3.096e+00,-3.332e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4245,3,0:3.786e-04,2.329e-04:4248:1700,0,0:2545,3,0 +MT 348 . C T, . t_lod CONTQ=93;DP=4362;ECNT=28;MBQ=29,27,0;MFRL=333,401,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.096e+00,-3.332e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4245,3,0:3.786e-04,2.329e-04:4248:1700,0,0:2545,3,0 MT 349 . C . . END=349 GT:DP:MIN_DP:TLOD 0/0:4266:4266:-3.513e+00 -MT 350 . A C, . base_quality;t_lod CONTQ=93;DP=4399;ECNT=28;MBQ=29,7,0;MFRL=333,310,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.860e-03;SAPP=0.033,6.748e-05,0.967;TLOD=-3.312e+00,-3.336e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4292,8,0:2.442e-04,2.306e-04:4300:1719,4,0:2573,4,0 +MT 350 . A C, . base_quality;t_lod CONTQ=93;DP=4399;ECNT=28;MBQ=29,7,0;MFRL=333,310,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.312e+00,-3.336e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4292,8,0:2.442e-04,2.306e-04:4300:1719,4,0:2573,4,0 MT 351 . A . . END=351 GT:DP:MIN_DP:TLOD 0/0:4307:4307:-3.632e+00 MT 352 . A . . END=352 GT:DP:MIN_DP:TLOD 0/0:4317:4317:-3.476e+00 MT 353 . C . . END=354 GT:DP:MIN_DP:TLOD 0/0:4373:4362:-3.637e+00 MT 355 . C . . END=355 GT:DP:MIN_DP:TLOD 0/0:4414:4414:-3.285e+00 MT 356 . C . . END=358 GT:DP:MIN_DP:TLOD 0/0:4458:4442:-3.646e+00 -MT 359 . A C, . base_quality;t_lod CONTQ=93;DP=4631;ECNT=28;MBQ=29,10,0;MFRL=333,388,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.104e-03;SAPP=1.107e-04,0.026,0.974;TLOD=-3.347e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4497,14,0:2.249e-04,2.199e-04:4511:1809,7,0:2688,7,0 +MT 359 . A C, . base_quality;t_lod CONTQ=93;DP=4631;ECNT=28;MBQ=29,10,0;MFRL=333,388,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.347e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4497,14,0:2.249e-04,2.199e-04:4511:1809,7,0:2688,7,0 MT 360 . A . . END=360 GT:DP:MIN_DP:TLOD 0/0:5330:5330:-3.486e+00 MT 361 . A . . END=362 GT:DP:MIN_DP:TLOD 0/0:5354:5338:-3.715e+00 MT 363 . A . . END=363 GT:DP:MIN_DP:TLOD 0/0:5409:5409:-3.298e+00 @@ -380,24 +378,24 @@ MT 451 . A . . END=451 GT:DP:MIN_DP:TLOD 0/0:6600:6600:-2.340e+00 MT 452 . T . . END=452 GT:DP:MIN_DP:TLOD 0/0:6589:6589:-3.081e+00 MT 453 . T . . END=453 GT:DP:MIN_DP:TLOD 0/0:6625:6625:-2.991e+00 MT 454 . T . . END=455 GT:DP:MIN_DP:TLOD 0/0:6624:6601:-3.648e+00 -MT 456 . C T, . base_quality;t_lod CONTQ=93;DP=3730;ECNT=27;MBQ=29,11,0;MFRL=330,313,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.384e-03;SAPP=0.022,6.970e-05,0.978;TLOD=-3.259e+00,-3.262e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3609,5,0:2.752e-04,2.735e-04:3614:1407,5,0:2202,0,0 +MT 456 . C T, . base_quality;t_lod CONTQ=93;DP=3730;ECNT=27;MBQ=29,11,0;MFRL=330,313,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.259e+00,-3.262e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3609,5,0:2.752e-04,2.735e-04:3614:1407,5,0:2202,0,0 MT 457 . C . . END=457 GT:DP:MIN_DP:TLOD 0/0:3653:3653:-3.398e+00 MT 458 . C . . END=458 GT:DP:MIN_DP:TLOD 0/0:3647:3647:-3.557e+00 MT 459 . C . . END=459 GT:DP:MIN_DP:TLOD 0/0:3671:3671:-3.477e+00 -MT 460 . T A, . base_quality;t_lod CONTQ=93;DP=3730;ECNT=27;MBQ=28,10,0;MFRL=330,356,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.319e-04;SAPP=4.186e-04,1.409e-04,0.999;TLOD=-3.259e+00,-3.260e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3603,3,0:2.757e-04,2.746e-04:3606:1417,2,0:2186,1,0 -MT 461 . C A, . t_lod CONTQ=93;DP=3759;ECNT=27;MBQ=29,29,0;MFRL=330,258,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;SAAF=0.010,0.00,5.507e-04;SAPP=1.760e-04,2.352e-04,1.000;TLOD=-2.846e+00,-3.265e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3630,2,0:5.477e-04,2.715e-04:3632:1440,0,0:2190,2,0 -MT 462 . C A, . base_quality;t_lod CONTQ=93;DP=3742;ECNT=27;MBQ=29,10,0;MFRL=330,304,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.720e-04;SAPP=8.716e-04,5.678e-05,0.999;TLOD=-2.367e+00,-3.268e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3676,1,0:5.181e-04,2.698e-04:3677:1457,0,0:2219,1,0 +MT 460 . T A, . base_quality;t_lod CONTQ=93;DP=3730;ECNT=27;MBQ=28,10,0;MFRL=330,356,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.259e+00,-3.260e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3603,3,0:2.757e-04,2.746e-04:3606:1417,2,0:2186,1,0 +MT 461 . C A, . t_lod CONTQ=93;DP=3759;ECNT=27;MBQ=29,29,0;MFRL=330,258,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;TLOD=-2.846e+00,-3.265e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3630,2,0:5.477e-04,2.715e-04:3632:1440,0,0:2190,2,0 +MT 462 . C A, . base_quality;t_lod CONTQ=93;DP=3742;ECNT=27;MBQ=29,10,0;MFRL=330,304,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-2.367e+00,-3.268e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3676,1,0:5.181e-04,2.698e-04:3677:1457,0,0:2219,1,0 MT 463 . C . . END=463 GT:DP:MIN_DP:TLOD 0/0:3651:3651:-3.560e+00 -MT 464 . A C, . base_quality;t_lod CONTQ=93;DP=3763;ECNT=27;MBQ=26,5,0;MFRL=329,355,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.030,0.030,0.028;SAPP=3.494e-03,6.304e-04,0.996;TLOD=-1.289e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3497,101,0:2.427e-03,2.801e-04:3598:1362,51,0:2135,50,0 +MT 464 . A C, . base_quality;t_lod CONTQ=93;DP=3763;ECNT=27;MBQ=26,5,0;MFRL=329,355,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-1.289e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3497,101,0:2.427e-03,2.801e-04:3598:1362,51,0:2135,50,0 MT 465 . C . . END=465 GT:DP:MIN_DP:TLOD 0/0:3633:3633:-3.563e+00 -MT 466 . T C, . base_quality;t_lod CONTQ=93;DP=3750;ECNT=27;MBQ=28,4,0;MFRL=330,305,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.915e-03;SAPP=1.000,3.194e-09,3.481e-05;TLOD=-2.503e+00,-3.261e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3595,36,0:8.628e-04,2.742e-04:3631:1418,15,0:2177,21,0 +MT 466 . T C, . base_quality;t_lod CONTQ=93;DP=3750;ECNT=27;MBQ=28,4,0;MFRL=330,305,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-2.503e+00,-3.261e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3595,36,0:8.628e-04,2.742e-04:3631:1418,15,0:2177,21,0 MT 467 . C . . END=469 GT:DP:MIN_DP:TLOD 0/0:3638:3638:-3.563e+00 -MT 470 . A C, . base_quality;t_lod CONTQ=93;DP=3732;ECNT=27;MBQ=29,4,0;MFRL=330,323,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.010;SAPP=1.000,0.00,7.274e-17;TLOD=-3.120e+00,-3.262e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3605,37,0:3.916e-04,2.735e-04:3642:1415,23,0:2190,14,0 +MT 470 . A C, . base_quality;t_lod CONTQ=93;DP=3732;ECNT=27;MBQ=29,4,0;MFRL=330,323,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.120e+00,-3.262e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3605,37,0:3.916e-04,2.735e-04:3642:1415,23,0:2190,14,0 MT 471 . T . . END=471 GT:DP:MIN_DP:TLOD 0/0:3530:3530:-3.538e+00 -MT 472 . A C, . base_quality;t_lod CONTQ=93;DP=3732;ECNT=27;MBQ=28,7,0;MFRL=330,395,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.830e-03;SAPP=0.918,7.662e-06,0.082;TLOD=-3.135e+00,-3.258e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3581,21,0:3.601e-04,2.758e-04:3602:1422,10,0:2159,11,0 +MT 472 . A C, . base_quality;t_lod CONTQ=93;DP=3732;ECNT=27;MBQ=28,7,0;MFRL=330,395,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.135e+00,-3.258e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3581,21,0:3.601e-04,2.758e-04:3602:1422,10,0:2159,11,0 MT 473 . C . . END=473 GT:DP:MIN_DP:TLOD 0/0:3528:3528:-3.555e+00 MT 474 . T . . END=474 GT:DP:MIN_DP:TLOD 0/0:3515:3515:-3.247e+00 -MT 475 . A C, . base_quality;t_lod CONTQ=93;DP=3738;ECNT=27;MBQ=28,2,0;MFRL=330,336,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.148e-03;SAPP=0.999,3.316e-08,5.098e-04;TLOD=-3.234e+00,-3.260e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3601,15,0:2.922e-04,2.746e-04:3616:1446,5,0:2155,10,0 +MT 475 . A C, . base_quality;t_lod CONTQ=93;DP=3738;ECNT=27;MBQ=28,2,0;MFRL=330,336,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.234e+00,-3.260e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3601,15,0:2.922e-04,2.746e-04:3616:1446,5,0:2155,10,0 MT 476 . C . . END=476 GT:DP:MIN_DP:TLOD 0/0:3529:3529:-3.548e+00 MT 477 . T . . END=479 GT:DP:MIN_DP:TLOD 0/0:3499:3487:-3.429e+00 MT 480 . T . . END=480 GT:DP:MIN_DP:TLOD 0/0:3499:3499:-3.516e+00 @@ -407,47 +405,47 @@ MT 484 . A . . END=485 GT:DP:MIN_DP:TLOD 0/0:3514:3505:-3.499e+00 MT 486 . C . . END=486 GT:DP:MIN_DP:TLOD 0/0:3512:3512:-3.542e+00 MT 487 . A . . END=488 GT:DP:MIN_DP:TLOD 0/0:3497:3491:-3.467e+00 MT 489 . T . . END=492 GT:DP:MIN_DP:TLOD 0/0:3475:3466:-3.540e+00 -MT 493 . A C, . base_quality;t_lod CONTQ=93;DP=3661;ECNT=27;MBQ=26,5,0;MFRL=330,333,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.023;SAPP=5.642e-11,1.000,3.361e-07;TLOD=-2.770e+00,-3.239e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3408,81,0:7.851e-04,2.886e-04:3489:1383,28,0:2025,53,0 -MT 494 . C A, . base_quality;t_lod CONTQ=93;DP=3662;ECNT=27;MBQ=29,14,0;MFRL=331,325,0;MMQ=60,60,0;MPOS=1,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.136e-03;SAPP=7.908e-04,1.250e-04,0.999;TLOD=-3.174e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3518,4,0:3.325e-04,2.797e-04:3522:1432,0,0:2086,4,0 +MT 493 . A C, . base_quality;t_lod CONTQ=93;DP=3661;ECNT=27;MBQ=26,5,0;MFRL=330,333,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-2.770e+00,-3.239e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3408,81,0:7.851e-04,2.886e-04:3489:1383,28,0:2025,53,0 +MT 494 . C A, . base_quality;t_lod CONTQ=93;DP=3662;ECNT=27;MBQ=29,14,0;MFRL=331,325,0;MMQ=60,60,0;MPOS=1,0;POPAF=7.30,7.30;TLOD=-3.174e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3518,4,0:3.325e-04,2.797e-04:3522:1432,0,0:2086,4,0 MT 495 . C . . END=496 GT:DP:MIN_DP:TLOD 0/0:3514:3510:-3.546e+00 MT 497 . C . . END=497 GT:DP:MIN_DP:TLOD 0/0:3521:3521:-3.428e+00 MT 498 . C . . END=498 GT:DP:MIN_DP:TLOD 0/0:3516:3516:-3.549e+00 -MT 499 . G C, . base_quality;t_lod CONTQ=93;DP=3675;ECNT=27;MBQ=28,8,0;MFRL=330,333,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.021;SAPP=1.00,0.00,0.00;TLOD=2.61,-3.248e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3439,75,0:4.433e-03,2.824e-04:3514:1386,40,0:2053,35,0 +MT 499 . G C, . base_quality;t_lod CONTQ=93;DP=3675;ECNT=27;MBQ=28,8,0;MFRL=330,333,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=2.61,-3.248e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3439,75,0:4.433e-03,2.824e-04:3514:1386,40,0:2053,35,0 MT 500 . C . . END=502 GT:DP:MIN_DP:TLOD 0/0:3551:3526:-3.553e+00 -MT 503 . A C, . base_quality;t_lod CONTQ=93;DP=3703;ECNT=27;MBQ=29,4,0;MFRL=333,310,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.015;SAPP=1.000,9.102e-09,7.972e-05;TLOD=-3.084e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3506,52,0:4.140e-04,2.799e-04:3558:1429,29,0:2077,23,0 +MT 503 . A C, . base_quality;t_lod CONTQ=93;DP=3703;ECNT=27;MBQ=29,4,0;MFRL=333,310,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.084e+00,-3.252e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3506,52,0:4.140e-04,2.799e-04:3558:1429,29,0:2077,23,0 MT 504 . T . . END=504 GT:DP:MIN_DP:TLOD 0/0:3487:3487:-3.470e+00 MT 505 . C . . END=506 GT:DP:MIN_DP:TLOD 0/0:3542:3529:-3.518e+00 MT 507 . T . . END=509 GT:DP:MIN_DP:TLOD 0/0:3549:3538:-3.499e+00 MT 510 . C . . END=511 GT:DP:MIN_DP:TLOD 0/0:3608:3602:-3.560e+00 MT 512 . A . . END=512 GT:DP:MIN_DP:TLOD 0/0:3533:3533:-3.494e+00 -MT 513 . G GCA, . PASS CONTQ=93;DP=3702;ECNT=27;MBQ=10,29,0;MFRL=302,332,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.993;SAPP=4.072e-04,0.951,0.049;TLOD=12882.44,-3.244e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:25,3359,0:0.996,2.850e-04:3384:13,1392,0:12,1967,0 +MT 513 . G GCA, . PASS CONTQ=93;DP=3702;ECNT=27;MBQ=10,29,0;MFRL=302,332,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=12882.44,-3.244e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:25,3359,0:0.996,2.850e-04:3384:13,1392,0:12,1967,0 MT 514 . C . . END=516 GT:DP:MIN_DP:TLOD 0/0:3554:3551:-3.553e+00 MT 517 . A . . END=517 GT:DP:MIN_DP:TLOD 0/0:3587:3587:-3.323e+00 MT 518 . C . . END=518 GT:DP:MIN_DP:TLOD 0/0:3612:3612:-3.557e+00 MT 519 . A . . END=519 GT:DP:MIN_DP:TLOD 0/0:3618:3618:-2.976e+00 MT 520 . C . . END=524 GT:DP:MIN_DP:TLOD 0/0:3644:3627:-3.569e+00 -MT 525 . C A, . base_quality;t_lod CONTQ=93;DP=3840;ECNT=27;MBQ=24,2,0;MFRL=332,307,0;MMQ=60,60,0;MPOS=1,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.101e-03;SAPP=9.763e-04,1.541e-04,0.999;TLOD=-3.277e+00,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3800,8,0:2.643e-04,2.618e-04:3808:1574,4,0:2226,4,0:0|1:525_C_A:525 -MT 526 . G C, . base_quality;t_lod CONTQ=93;DP=3841;ECNT=27;MBQ=28,2,0;MFRL=331,307,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.121e-03;SAPP=9.646e-04,1.568e-04,0.999;TLOD=-3.274e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3763,8,0:2.658e-04,2.632e-04:3771:1558,4,0:2205,4,0:0|1:525_C_A:525 +MT 525 . C A, . base_quality;t_lod CONTQ=93;DP=3840;ECNT=27;MBQ=24,2,0;MFRL=332,307,0;MMQ=60,60,0;MPOS=1,0;POPAF=7.30,7.30;TLOD=-3.277e+00,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3800,8,0:2.643e-04,2.618e-04:3808:1574,4,0:2226,4,0:0|1:525_C_A:525 +MT 526 . G C, . base_quality;t_lod CONTQ=93;DP=3841;ECNT=27;MBQ=28,2,0;MFRL=331,307,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.274e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3763,8,0:2.658e-04,2.632e-04:3771:1558,4,0:2205,4,0:0|1:525_C_A:525 MT 527 . C . . END=527 GT:DP:MIN_DP:TLOD 0/0:3721:3721:-3.570e+00 MT 528 . T . . END=529 GT:DP:MIN_DP:TLOD 0/0:3731:3727:-3.380e+00 MT 530 . C . . END=536 GT:DP:MIN_DP:TLOD 0/0:3796:3759:-3.589e+00 MT 537 . C . . END=538 GT:DP:MIN_DP:TLOD 0/0:3925:3923:-3.498e+00 MT 539 . T . . END=543 GT:DP:MIN_DP:TLOD 0/0:3980:3919:-3.602e+00 MT 544 . C . . END=544 GT:DP:MIN_DP:TLOD 0/0:4072:4072:-2.469e+00 -MT 545 . G C, . base_quality;t_lod CONTQ=93;DP=4218;ECNT=27;MBQ=27,5,0;MFRL=333,356,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.150e-03;SAPP=0.869,9.847e-06,0.131;TLOD=-3.304e+00,-3.313e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4079,17,0:2.482e-04,2.434e-04:4096:1714,9,0:2365,8,0 +MT 545 . G C, . base_quality;t_lod CONTQ=93;DP=4218;ECNT=27;MBQ=27,5,0;MFRL=333,356,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.304e+00,-3.313e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4079,17,0:2.482e-04,2.434e-04:4096:1714,9,0:2365,8,0 MT 546 . A . . END=547 GT:DP:MIN_DP:TLOD 0/0:4133:4117:-3.614e+00 -MT 548 . C CAAA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4298;ECNT=27;MBQ=29,0,0;MFRL=333,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=9.644e-05,6.086e-05,1.000;TLOD=-3.328e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4219,0,0:2.349e-04,2.349e-04:4219:1783,0,0:2436,0,0:0|1:548_C_CAAA:548 -MT 549 . C CCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4323;ECNT=27;MBQ=29,0,0;MFRL=333,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=9.638e-05,6.088e-05,1.000;TLOD=-3.329e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4219,0,0:2.343e-04,2.343e-04:4219:1781,0,0:2438,0,0:0|1:548_C_CAAA:548 +MT 548 . C CAAA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4298;ECNT=27;MBQ=29,0,0;MFRL=333,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.328e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4219,0,0:2.349e-04,2.349e-04:4219:1783,0,0:2436,0,0:0|1:548_C_CAAA:548 +MT 549 . C CCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4323;ECNT=27;MBQ=29,0,0;MFRL=333,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.329e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4219,0,0:2.343e-04,2.343e-04:4219:1781,0,0:2438,0,0:0|1:548_C_CAAA:548 MT 550 . A . . END=554 GT:DP:MIN_DP:TLOD 0/0:4273:4231:-3.627e+00 -MT 555 . A C, . base_quality;t_lod CONTQ=93;DP=4473;ECNT=27;MBQ=28,8,0;MFRL=333,326,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.435e-03;SAPP=1.245e-04,0.062,0.938;TLOD=-3.314e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4323,28,0:2.430e-04,2.291e-04:4351:1840,15,0:2483,13,0 +MT 555 . A C, . base_quality;t_lod CONTQ=93;DP=4473;ECNT=27;MBQ=28,8,0;MFRL=333,326,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.314e+00,-3.339e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4323,28,0:2.430e-04,2.291e-04:4351:1840,15,0:2483,13,0 MT 556 . A . . END=559 GT:DP:MIN_DP:TLOD 0/0:4427:4323:-3.646e+00 MT 560 . C . . END=560 GT:DP:MIN_DP:TLOD 0/0:4502:4502:-3.019e+00 MT 561 . A . . END=562 GT:DP:MIN_DP:TLOD 0/0:4511:4493:-3.622e+00 -MT 563 . A C, . base_quality;t_lod CONTQ=93;DP=4665;ECNT=27;MBQ=29,4,0;MFRL=333,345,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.420e-03;SAPP=9.788e-05,7.829e-03,0.992;TLOD=-3.329e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4535,11,0:2.346e-04,2.185e-04:4546:1950,5,0:2585,6,0 +MT 563 . A C, . base_quality;t_lod CONTQ=93;DP=4665;ECNT=27;MBQ=29,4,0;MFRL=333,345,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.329e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4535,11,0:2.346e-04,2.185e-04:4546:1950,5,0:2585,6,0 MT 564 . G . . END=566 GT:DP:MIN_DP:TLOD 0/0:4550:4541:-3.662e+00 -MT 567 . A C,AC, . base_quality;t_lod CONTQ=93;DP=4757;ECNT=27;MBQ=27,6,21,0;MFRL=333,315,343,0;MMQ=60,60,60,0;MPOS=28,65,0;POPAF=7.30,7.30,7.30;SAAF=0.020,0.010,0.017;SAPP=6.953e-11,1.000,6.855e-07;TLOD=-3.018e+00,-3.097e+00,-3.191e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4403,75,2,0:3.228e-04,2.656e-04,2.145e-04:4480:1932,27,1,0:2471,48,1,0 +MT 567 . A C,AC, . base_quality;t_lod CONTQ=93;DP=4757;ECNT=27;MBQ=27,6,21,0;MFRL=333,315,343,0;MMQ=60,60,60,0;MPOS=28,65,0;POPAF=7.30,7.30,7.30;TLOD=-3.018e+00,-3.097e+00,-3.191e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4403,75,2,0:3.228e-04,2.656e-04,2.145e-04:4480:1932,27,1,0:2471,48,1,0 MT 568 . C . . END=573 GT:DP:MIN_DP:TLOD 0/0:4765:4635:-3.678e+00 -MT 574 . A C, . base_quality;t_lod CONTQ=93;DP=4945;ECNT=27;MBQ=28,5,0;MFRL=333,370,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.012;SAPP=1.000,8.372e-16,1.256e-11;TLOD=-3.248e+00,-3.381e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4752,57,0:2.858e-04,2.080e-04:4809:2082,40,0:2670,17,0 +MT 574 . A C, . base_quality;t_lod CONTQ=93;DP=4945;ECNT=27;MBQ=28,5,0;MFRL=333,370,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.248e+00,-3.381e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4752,57,0:2.858e-04,2.080e-04:4809:2082,40,0:2670,17,0 MT 575 . C . . END=579 GT:DP:MIN_DP:TLOD 0/0:4837:4804:-3.685e+00 MT 580 . T . . END=580 GT:DP:MIN_DP:TLOD 0/0:4946:4946:-3.398e+00 MT 581 . A . . END=590 GT:DP:MIN_DP:TLOD 0/0:5088:4973:-3.708e+00 @@ -457,15 +455,15 @@ MT 594 . C . . END=594 GT:DP:MIN_DP:TLOD 0/0:5293:5293:-3.356e+00 MT 595 . C . . END=596 GT:DP:MIN_DP:TLOD 0/0:5303:5291:-3.714e+00 MT 597 . C . . END=597 GT:DP:MIN_DP:TLOD 0/0:5341:5341:-3.478e+00 MT 598 . A . . END=605 GT:DP:MIN_DP:TLOD 0/0:5404:5337:-3.727e+00 -MT 606 . A G, . PASS CONTQ=93;DP=5629;ECNT=27;MBQ=29,29,0;MFRL=303,336,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.998;SAPP=0.019,0.033,0.947;TLOD=17697.32,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:12,5486,0:0.998,1.806e-04:5498:7,2490,0:5,2996,0 +MT 606 . A G, . PASS CONTQ=93;DP=5629;ECNT=27;MBQ=29,29,0;MFRL=303,336,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=17697.32,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:12,5486,0:0.998,1.806e-04:5498:7,2490,0:5,2996,0 MT 607 . C . . END=611 GT:DP:MIN_DP:TLOD 0/0:5531:5515:-3.737e+00 MT 612 . A . . END=612 GT:DP:MIN_DP:TLOD 0/0:5606:5606:-3.473e+00 MT 613 . A . . END=617 GT:DP:MIN_DP:TLOD 0/0:5664:5639:-3.748e+00 -MT 618 . T G, . base_quality;t_lod CONTQ=93;DP=5835;ECNT=27;MBQ=29,9,0;MFRL=337,373,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.105e-03;SAPP=3.422e-04,1.872e-04,0.999;TLOD=-3.454e+00,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5688,12,0:1.760e-04,1.743e-04:5700:2576,4,0:3112,8,0 +MT 618 . T G, . base_quality;t_lod CONTQ=93;DP=5835;ECNT=27;MBQ=29,9,0;MFRL=337,373,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.454e+00,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5688,12,0:1.760e-04,1.743e-04:5700:2576,4,0:3112,8,0 MT 619 . T . . END=623 GT:DP:MIN_DP:TLOD 0/0:5774:5748:-3.757e+00 -MT 624 . C A, . base_quality;t_lod CONTQ=93;DP=5939;ECNT=27;MBQ=25,8,0;MFRL=337,530,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.400e-04;SAPP=3.483e-04,5.712e-05,1.000;TLOD=-3.470e+00,-3.470e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5881,2,0:1.696e-04,1.693e-04:5883:2658,1,0:3223,1,0:0|1:624_C_A:624 +MT 624 . C A, . base_quality;t_lod CONTQ=93;DP=5939;ECNT=27;MBQ=25,8,0;MFRL=337,530,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.470e+00,-3.470e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5881,2,0:1.696e-04,1.693e-04:5883:2658,1,0:3223,1,0:0|1:624_C_A:624 MT 625 . G . . END=641 GT:DP:MIN_DP:TLOD 0/0:5969:5764:-3.775e+00 -MT 642 . T TAAACA, . base_quality;t_lod CONTQ=93;DP=6220;ECNT=27;MBQ=29,0,0;MFRL=337,630,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.631e-04;SAPP=1.237e-04,5.785e-05,1.000;TLOD=-3.489e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6130,1,0:1.621e-04,1.620e-04:6131:2787,0,0:3343,1,0:0|1:624_C_A:624 +MT 642 . T TAAACA, . base_quality;t_lod CONTQ=93;DP=6220;ECNT=27;MBQ=29,0,0;MFRL=337,630,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.489e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6130,1,0:1.621e-04,1.620e-04:6131:2787,0,0:3343,1,0:0|1:624_C_A:624 MT 643 . A . . END=643 GT:DP:MIN_DP:TLOD 0/0:6977:6977:-3.398e+00 MT 644 . A . . END=654 GT:DP:MIN_DP:TLOD 0/0:6937:6875:-3.801e+00 MT 655 . T . . END=655 GT:DP:MIN_DP:TLOD 0/0:6919:6919:-3.412e+00 @@ -484,29 +482,29 @@ MT 698 . C . . END=698 GT:DP:MIN_DP:TLOD 0/0:7227:7227:-3.303e+00 MT 699 . A . . END=706 GT:DP:MIN_DP:TLOD 0/0:7212:7145:-3.834e+00 MT 707 . C . . END=709 GT:DP:MIN_DP:TLOD 0/0:7210:7035:-3.433e+00 MT 710 . T . . END=712 GT:DP:MIN_DP:TLOD 0/0:7213:7213:-3.651e+00 -MT 713 . C A, . base_quality;t_lod CONTQ=93;DP=6893;ECNT=13;MBQ=29,12,0;MFRL=344,364,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.490e-03;SAPP=7.944e-05,9.533e-04,0.999;TLOD=-3.454e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6703,10,0:1.766e-04,1.475e-04:6713:3257,3,0:3446,7,0 +MT 713 . C A, . base_quality;t_lod CONTQ=93;DP=6893;ECNT=13;MBQ=29,12,0;MFRL=344,364,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.454e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6703,10,0:1.766e-04,1.475e-04:6713:3257,3,0:3446,7,0 MT 714 . A . . END=717 GT:DP:MIN_DP:TLOD 0/0:6777:6750:-3.824e+00 -MT 718 . A C, . base_quality;t_lod CONTQ=93;DP=6898;ECNT=13;MBQ=29,5,0;MFRL=344,376,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.280e-03;SAPP=1.173e-03,1.192e-04,0.999;TLOD=-3.523e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6685,22,0:1.501e-04,1.478e-04:6707:3248,10,0:3437,12,0 -MT 719 . G A, . base_quality;t_lod CONTQ=93;DP=6902;ECNT=13;MBQ=29,11,0;MFRL=344,383,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.956e-04;SAPP=6.212e-05,3.461e-04,1.000;TLOD=-3.439e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6712,4,0:1.798e-04,1.475e-04:6716:3260,1,0:3452,3,0 -MT 720 . T G, . base_quality;t_lod CONTQ=93;DP=6902;ECNT=13;MBQ=29,7,0;MFRL=344,396,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.535e-03;SAPP=1.378e-04,7.444e-04,0.999;TLOD=-3.524e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6689,17,0:1.498e-04,1.480e-04:6706:3246,11,0:3443,6,0 +MT 718 . A C, . base_quality;t_lod CONTQ=93;DP=6898;ECNT=13;MBQ=29,5,0;MFRL=344,376,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.523e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6685,22,0:1.501e-04,1.478e-04:6707:3248,10,0:3437,12,0 +MT 719 . G A, . base_quality;t_lod CONTQ=93;DP=6902;ECNT=13;MBQ=29,11,0;MFRL=344,383,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.439e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6712,4,0:1.798e-04,1.475e-04:6716:3260,1,0:3452,3,0 +MT 720 . T G, . base_quality;t_lod CONTQ=93;DP=6902;ECNT=13;MBQ=29,7,0;MFRL=344,396,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.524e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6689,17,0:1.498e-04,1.480e-04:6706:3246,11,0:3443,6,0 MT 721 . T . . END=730 GT:DP:MIN_DP:TLOD 0/0:6826:6765:-3.834e+00 -MT 731 . A G, . base_quality;t_lod CONTQ=93;DP=6941;ECNT=13;MBQ=29,9,0;MFRL=344,414,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.186e-03;SAPP=1.639e-04,2.166e-04,1.000;TLOD=-3.416e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6737,8,0:1.876e-04,1.468e-04:6745:3266,6,0:3471,2,0 +MT 731 . A G, . base_quality;t_lod CONTQ=93;DP=6941;ECNT=13;MBQ=29,9,0;MFRL=344,414,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.416e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6737,8,0:1.876e-04,1.468e-04:6745:3266,6,0:3471,2,0 MT 732 . A . . END=736 GT:DP:MIN_DP:TLOD 0/0:6854:6829:-3.752e+00 -MT 737 . C A, . base_quality;t_lod CONTQ=93;DP=6978;ECNT=13;MBQ=29,10,0;MFRL=343,401,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.797e-03;SAPP=6.483e-04,1.422e-04,0.999;TLOD=-3.289e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6773,19,0:2.550e-04,1.459e-04:6792:3292,13,0:3481,6,0 +MT 737 . C A, . base_quality;t_lod CONTQ=93;DP=6978;ECNT=13;MBQ=29,10,0;MFRL=343,401,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.289e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6773,19,0:2.550e-04,1.459e-04:6792:3292,13,0:3481,6,0 MT 738 . A . . END=741 GT:DP:MIN_DP:TLOD 0/0:6864:6837:-3.820e+00 -MT 742 . T A,G, . base_quality;t_lod CONTQ=93;DP=7012;ECNT=13;MBQ=29,11,8,0;MFRL=343,474,380,0;MMQ=60,60,60,0;MPOS=10,21,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.233e-03;SAPP=2.836e-03,9.567e-05,0.997;TLOD=-3.356e+00,-3.308e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6783,13,22,0:1.470e-04,1.640e-04,1.457e-04:6818:3303,3,11,0:3480,10,11,0 +MT 742 . T A,G, . base_quality;t_lod CONTQ=93;DP=7012;ECNT=13;MBQ=29,11,8,0;MFRL=343,474,380,0;MMQ=60,60,60,0;MPOS=10,21,0;POPAF=7.30,7.30,7.30;TLOD=-3.356e+00,-3.308e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6783,13,22,0:1.470e-04,1.640e-04,1.457e-04:6818:3303,3,11,0:3480,10,11,0 MT 743 . C . . END=749 GT:DP:MIN_DP:TLOD 0/0:6915:6910:-3.821e+00 -MT 750 . A G,T, . PASS CONTQ=93;DP=7032;ECNT=13;MBQ=6,29,12,0;MFRL=415,343,532,0;MMQ=60,60,60,0;MPOS=37,22,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.023,0.031,0.946;TLOD=22083.78,-3.246e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4,6832,7,0:1.000,1.888e-04,1.448e-04:6843:3,3303,4,0:1,3529,3,0 +MT 750 . A G,T, . PASS CONTQ=93;DP=7032;ECNT=13;MBQ=6,29,12,0;MFRL=415,343,532,0;MMQ=60,60,60,0;MPOS=37,22,0;POPAF=7.30,7.30,7.30;TLOD=22083.78,-3.246e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4,6832,7,0:1.000,1.888e-04,1.448e-04:6843:3,3303,4,0:1,3529,3,0 MT 751 . A . . END=761 GT:DP:MIN_DP:TLOD 0/0:6915:6898:-3.837e+00 -MT 762 . G T, . base_quality;t_lod CONTQ=93;DP=7009;ECNT=13;MBQ=29,19,0;MFRL=344,326,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.025e-03;SAPP=1.201e-04,2.675e-04,1.000;TLOD=-3.366e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6822,7,0:2.163e-04,1.451e-04:6829:3293,5,0:3529,2,0 +MT 762 . G T, . base_quality;t_lod CONTQ=93;DP=7009;ECNT=13;MBQ=29,19,0;MFRL=344,326,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.366e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6822,7,0:2.163e-04,1.451e-04:6829:3293,5,0:3529,2,0 MT 763 . C . . END=770 GT:DP:MIN_DP:TLOD 0/0:6870:6817:-3.833e+00 -MT 771 . A C, . base_quality;t_lod CONTQ=93;DP=6974;ECNT=13;MBQ=29,8,0;MFRL=343,423,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.176e-03;SAPP=6.807e-04,8.516e-05,0.999;TLOD=-3.533e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6793,8,0:1.467e-04,1.457e-04:6801:3293,4,0:3500,4,0 +MT 771 . A C, . base_quality;t_lod CONTQ=93;DP=6974;ECNT=13;MBQ=29,8,0;MFRL=343,423,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.533e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6793,8,0:1.467e-04,1.457e-04:6801:3293,4,0:3500,4,0 MT 772 . A . . END=776 GT:DP:MIN_DP:TLOD 0/0:6865:6844:-3.829e+00 -MT 777 . G T, . base_quality;t_lod CONTQ=93;DP=6966;ECNT=13;MBQ=29,13,0;MFRL=343,383,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.033e-03;SAPP=1.218e-04,2.678e-04,1.000;TLOD=-3.406e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6768,7,0:1.946e-04,1.461e-04:6775:3280,2,0:3488,5,0 +MT 777 . G T, . base_quality;t_lod CONTQ=93;DP=6966;ECNT=13;MBQ=29,13,0;MFRL=343,383,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.406e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6768,7,0:1.946e-04,1.461e-04:6775:3280,2,0:3488,5,0 MT 778 . C . . END=782 GT:DP:MIN_DP:TLOD 0/0:6849:6801:-3.819e+00 -MT 783 . A C, . base_quality;t_lod CONTQ=93;DP=6938;ECNT=13;MBQ=29,8,0;MFRL=343,390,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.666e-03;SAPP=3.447e-04,2.131e-04,0.999;TLOD=-3.464e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6734,18,0:1.724e-04,1.469e-04:6752:3259,7,0:3475,11,0 +MT 783 . A C, . base_quality;t_lod CONTQ=93;DP=6938;ECNT=13;MBQ=29,8,0;MFRL=343,390,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.464e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6734,18,0:1.724e-04,1.469e-04:6752:3259,7,0:3475,11,0 MT 784 . A . . END=785 GT:DP:MIN_DP:TLOD 0/0:6813:6803:-3.826e+00 -MT 786 . G T, . base_quality;t_lod CONTQ=93;DP=6938;ECNT=13;MBQ=25,14,0;MFRL=343,623,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.419e-04;SAPP=1.644e-04,1.050e-04,1.000;TLOD=-3.318e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6734,5,0:2.316e-04,1.471e-04:6739:3257,3,0:3477,2,0 +MT 786 . G T, . base_quality;t_lod CONTQ=93;DP=6938;ECNT=13;MBQ=25,14,0;MFRL=343,623,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.318e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6734,5,0:2.316e-04,1.471e-04:6739:3257,3,0:3477,2,0 MT 787 . C . . END=800 GT:DP:MIN_DP:TLOD 0/0:7256:7231:-3.849e+00 MT 801 . A . . END=802 GT:DP:MIN_DP:TLOD 0/0:7208:7185:-3.468e+00 MT 803 . C . . END=808 GT:DP:MIN_DP:TLOD 0/0:7251:7192:-3.768e+00 @@ -733,48 +731,48 @@ MT 1396 . C . . END=1396 GT:DP:MIN_DP:TLOD 0/0:7240:7240:-3.257e+00 MT 1397 . T . . END=1397 GT:DP:MIN_DP:TLOD 0/0:7212:7212:-3.754e+00 MT 1398 . T . . END=1398 GT:DP:MIN_DP:TLOD 0/0:7212:7212:-3.364e+00 MT 1399 . A . . END=1402 GT:DP:MIN_DP:TLOD 0/0:7226:7222:-3.825e+00 -MT 1403 . A C, . base_quality;t_lod CONTQ=93;DP=6799;ECNT=22;MBQ=29,9,0;MFRL=355,382,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.806e-03;SAPP=2.791e-04,1.443e-04,1.000;TLOD=-3.510e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6634,12,0:1.545e-04,1.494e-04:6646:3236,5,0:3398,7,0 +MT 1403 . A C, . base_quality;t_lod CONTQ=93;DP=6799;ECNT=22;MBQ=29,9,0;MFRL=355,382,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6634,12,0:1.545e-04,1.494e-04:6646:3236,5,0:3398,7,0 MT 1404 . A . . END=1406 GT:DP:MIN_DP:TLOD 0/0:6635:6614:-3.808e+00 -MT 1407 . T G, . base_quality;t_lod CONTQ=93;DP=6769;ECNT=22;MBQ=29,8,0;MFRL=356,339,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.188e-03;SAPP=1.425e-04,6.920e-04,0.999;TLOD=-3.333e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6567,21,0:2.283e-04,1.507e-04:6588:3210,16,0:3357,5,0 +MT 1407 . T G, . base_quality;t_lod CONTQ=93;DP=6769;ECNT=22;MBQ=29,8,0;MFRL=356,339,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.333e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6567,21,0:2.283e-04,1.507e-04:6588:3210,16,0:3357,5,0 MT 1408 . A . . END=1410 GT:DP:MIN_DP:TLOD 0/0:6621:6603:-3.804e+00 -MT 1411 . G T, . base_quality;t_lod CONTQ=93;DP=6783;ECNT=22;MBQ=29,12,0;MFRL=356,374,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.515e-03;SAPP=2.567e-04,1.402e-04,1.000;TLOD=-3.502e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6592,10,0:1.574e-04,1.501e-04:6602:3224,4,0:3368,6,0 +MT 1411 . G T, . base_quality;t_lod CONTQ=93;DP=6783;ECNT=22;MBQ=29,12,0;MFRL=356,374,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;TLOD=-3.502e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6592,10,0:1.574e-04,1.501e-04:6602:3224,4,0:3368,6,0 MT 1412 . G . . END=1412 GT:DP:MIN_DP:TLOD 0/0:6630:6630:-3.823e+00 -MT 1413 . T C,G, . base_quality;t_lod CONTQ=93;DP=6785;ECNT=22;MBQ=28,6,6,0;MFRL=355,440,380,0;MMQ=60,60,60,0;MPOS=36,22,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,5.772e-03;SAPP=2.997e-04,4.534e-04,0.999;TLOD=-3.341e+00,-3.308e+00,-3.345e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6545,13,38,0:1.521e-04,1.646e-04,1.507e-04:6596:3199,5,19,0:3346,8,19,0 +MT 1413 . T C,G, . base_quality;t_lod CONTQ=93;DP=6785;ECNT=22;MBQ=28,6,6,0;MFRL=355,440,380,0;MMQ=60,60,60,0;MPOS=36,22,0;POPAF=7.30,7.30,7.30;TLOD=-3.341e+00,-3.308e+00,-3.345e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6545,13,38,0:1.521e-04,1.646e-04,1.507e-04:6596:3199,5,19,0:3346,8,19,0 MT 1414 . C . . END=1414 GT:DP:MIN_DP:TLOD 0/0:6581:6581:-3.755e+00 -MT 1415 . G T, . t_lod CONTQ=93;DP=6794;ECNT=22;MBQ=27,20,0;MFRL=355,346,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.068e-04;SAPP=1.507e-03,5.705e-05,0.998;TLOD=-3.312e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6611,6,0:2.396e-04,1.500e-04:6617:3221,4,0:3390,2,0 +MT 1415 . G T, . t_lod CONTQ=93;DP=6794;ECNT=22;MBQ=27,20,0;MFRL=355,346,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.312e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6611,6,0:2.396e-04,1.500e-04:6617:3221,4,0:3390,2,0 MT 1416 . A . . END=1419 GT:DP:MIN_DP:TLOD 0/0:6674:6658:-3.790e+00 -MT 1420 . T G, . base_quality;t_lod CONTQ=93;DP=6814;ECNT=22;MBQ=29,8,0;MFRL=354,378,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.141e-03;SAPP=2.416e-03,1.282e-04,0.997;TLOD=-3.413e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6579,34,0:1.914e-04,1.502e-04:6613:3198,17,0:3381,17,0 +MT 1420 . T G, . base_quality;t_lod CONTQ=93;DP=6814;ECNT=22;MBQ=29,8,0;MFRL=354,378,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.413e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6579,34,0:1.914e-04,1.502e-04:6613:3198,17,0:3381,17,0 MT 1421 . G . . END=1424 GT:DP:MIN_DP:TLOD 0/0:6689:6679:-3.750e+00 -MT 1425 . T G, . base_quality;t_lod CONTQ=93;DP=6820;ECNT=22;MBQ=29,9,0;MFRL=354,390,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.265e-03;SAPP=8.008e-04,1.225e-04,0.999;TLOD=-3.444e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6607,15,0:1.798e-04,1.496e-04:6622:3201,10,0:3406,5,0 -MT 1426 . T G, . base_quality;t_lod CONTQ=93;DP=6828;ECNT=22;MBQ=29,10,0;MFRL=354,303,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.658e-03;SAPP=7.581e-05,1.744e-03,0.998;TLOD=-3.471e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6624,11,0:1.694e-04,1.492e-04:6635:3211,5,0:3413,6,0 +MT 1425 . T G, . base_quality;t_lod CONTQ=93;DP=6820;ECNT=22;MBQ=29,9,0;MFRL=354,390,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.444e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6607,15,0:1.798e-04,1.496e-04:6622:3201,10,0:3406,5,0 +MT 1426 . T G, . base_quality;t_lod CONTQ=93;DP=6828;ECNT=22;MBQ=29,10,0;MFRL=354,303,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.471e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6624,11,0:1.694e-04,1.492e-04:6635:3211,5,0:3413,6,0 MT 1427 . A . . END=1428 GT:DP:MIN_DP:TLOD 0/0:6716:6715:-3.825e+00 -MT 1429 . C A, . base_quality;t_lod CONTQ=93;DP=6850;ECNT=22;MBQ=29,16,0;MFRL=354,357,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.005e-04;SAPP=1.862e-04,1.301e-04,1.000;TLOD=-3.499e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6657,6,0:1.586e-04,1.486e-04:6663:3227,2,0:3430,4,0 +MT 1429 . C A, . base_quality;t_lod CONTQ=93;DP=6850;ECNT=22;MBQ=29,16,0;MFRL=354,357,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.499e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6657,6,0:1.586e-04,1.486e-04:6663:3227,2,0:3430,4,0 MT 1430 . A . . END=1431 GT:DP:MIN_DP:TLOD 0/0:6737:6732:-3.816e+00 -MT 1432 . T G, . base_quality;t_lod CONTQ=93;DP=6869;ECNT=22;MBQ=29,9,0;MFRL=354,352,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.245e-03;SAPP=1.035e-04,1.333e-03,0.999;TLOD=-3.508e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6668,15,0:1.555e-04,1.482e-04:6683:3226,7,0:3442,8,0 +MT 1432 . T G, . base_quality;t_lod CONTQ=93;DP=6869;ECNT=22;MBQ=29,9,0;MFRL=354,352,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6668,15,0:1.555e-04,1.482e-04:6683:3226,7,0:3442,8,0 MT 1433 . A . . END=1433 GT:DP:MIN_DP:TLOD 0/0:6744:6744:-3.729e+00 -MT 1434 . A C, . base_quality;t_lod CONTQ=93;DP=6889;ECNT=22;MBQ=29,7,0;MFRL=353,378,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.542e-03;SAPP=4.424e-04,1.821e-04,0.999;TLOD=-3.392e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6670,17,0:1.986e-04,1.480e-04:6687:3222,11,0:3448,6,0 +MT 1434 . A C, . base_quality;t_lod CONTQ=93;DP=6889;ECNT=22;MBQ=29,7,0;MFRL=353,378,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.392e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6670,17,0:1.986e-04,1.480e-04:6687:3222,11,0:3448,6,0 MT 1435 . A . . END=1435 GT:DP:MIN_DP:TLOD 0/0:6742:6742:-3.729e+00 -MT 1436 . C A, . base_quality;t_lod CONTQ=93;DP=6912;ECNT=22;MBQ=29,13,0;MFRL=354,304,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.192e-03;SAPP=4.561e-04,1.016e-04,0.999;TLOD=-3.414e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6706,8,0:1.885e-04,1.474e-04:6714:3241,2,0:3465,6,0 +MT 1436 . C A, . base_quality;t_lod CONTQ=93;DP=6912;ECNT=22;MBQ=29,13,0;MFRL=354,304,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.414e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6706,8,0:1.885e-04,1.474e-04:6714:3241,2,0:3465,6,0 MT 1437 . T . . END=1437 GT:DP:MIN_DP:TLOD 0/0:6745:6745:-3.799e+00 -MT 1438 . A G, . PASS CONTQ=93;DP=6896;ECNT=22;MBQ=0,29,0;MFRL=0,354,0;MMQ=0,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,1.00;SAPP=0.027,0.027,0.946;TLOD=22026.44,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:0,6713,0:1.000,1.474e-04:6713:0,3240,0:0,3473,0 +MT 1438 . A G, . PASS CONTQ=93;DP=6896;ECNT=22;MBQ=0,29,0;MFRL=0,354,0;MMQ=0,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=22026.44,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:0,6713,0:1.000,1.474e-04:6713:0,3240,0:0,3473,0 MT 1439 . A . . END=1439 GT:DP:MIN_DP:TLOD 0/0:6750:6750:-3.821e+00 -MT 1440 . G T, . t_lod CONTQ=93;DP=6897;ECNT=22;MBQ=29,21,0;MFRL=353,368,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.958e-04;SAPP=7.364e-05,2.405e-04,1.000;TLOD=-3.431e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6710,4,0:1.833e-04,1.475e-04:6714:3220,3,0:3490,1,0 +MT 1440 . G T, . t_lod CONTQ=93;DP=6897;ECNT=22;MBQ=29,21,0;MFRL=353,368,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.431e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6710,4,0:1.833e-04,1.475e-04:6714:3220,3,0:3490,1,0 MT 1441 . A . . END=1442 GT:DP:MIN_DP:TLOD 0/0:6709:6692:-3.822e+00 MT 1443 . T . . END=1443 GT:DP:MIN_DP:TLOD 0/0:6686:6686:-3.001e+00 MT 1444 . A . . END=1451 GT:DP:MIN_DP:TLOD 0/0:6668:6631:-3.822e+00 -MT 1452 . T G, . base_quality;t_lod CONTQ=93;DP=6810;ECNT=22;MBQ=29,9,0;MFRL=353,367,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.128e-03;SAPP=2.515e-03,1.272e-04,0.997;TLOD=-3.399e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6596,34,0:2.030e-04,1.499e-04:6630:3162,18,0:3434,16,0 +MT 1452 . T G, . base_quality;t_lod CONTQ=93;DP=6810;ECNT=22;MBQ=29,9,0;MFRL=353,367,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.399e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6596,34,0:2.030e-04,1.499e-04:6630:3162,18,0:3434,16,0 MT 1453 . A . . END=1457 GT:DP:MIN_DP:TLOD 0/0:6675:6661:-3.816e+00 -MT 1458 . A C, . base_quality;t_lod CONTQ=93;DP=6802;ECNT=22;MBQ=29,17,0;MFRL=353,362,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.959e-04;SAPP=1.266e-04,1.047e-04,1.000;TLOD=-3.520e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6708,4,0:1.511e-04,1.482e-04:6712:3223,2,0:3485,2,0 +MT 1458 . A C, . base_quality;t_lod CONTQ=93;DP=6802;ECNT=22;MBQ=29,17,0;MFRL=353,362,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6708,4,0:1.511e-04,1.482e-04:6712:3223,2,0:3485,2,0 MT 1459 . A . . END=1461 GT:DP:MIN_DP:TLOD 0/0:6671:6635:-3.817e+00 -MT 1462 . G T, . base_quality;t_lod CONTQ=93;DP=6799;ECNT=22;MBQ=29,13,0;MFRL=353,372,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.114e-03;SAPP=8.296e-04,1.100e-04,0.999;TLOD=-3.391e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6610,14,0:2.014e-04,1.497e-04:6624:3182,7,0:3428,7,0 -MT 1463 . G T, . base_quality;t_lod CONTQ=93;DP=6798;ECNT=22;MBQ=29,14,0;MFRL=353,430,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.986e-04;SAPP=1.119e-04,9.659e-05,1.000;TLOD=-3.527e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6697,2,0:1.487e-04,1.485e-04:6699:3219,0,0:3478,2,0 +MT 1462 . G T, . base_quality;t_lod CONTQ=93;DP=6799;ECNT=22;MBQ=29,13,0;MFRL=353,372,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.391e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6610,14,0:2.014e-04,1.497e-04:6624:3182,7,0:3428,7,0 +MT 1463 . G T, . base_quality;t_lod CONTQ=93;DP=6798;ECNT=22;MBQ=29,14,0;MFRL=353,430,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.527e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6697,2,0:1.487e-04,1.485e-04:6699:3219,0,0:3478,2,0 MT 1464 . G . . END=1464 GT:DP:MIN_DP:TLOD 0/0:6611:6611:-3.641e+00 -MT 1465 . C A, . base_quality;t_lod CONTQ=93;DP=6789;ECNT=22;MBQ=29,12,0;MFRL=354,351,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.120e-03;SAPP=6.100e-03,7.167e-05,0.994;TLOD=-3.465e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,14,0:1.718e-04,1.501e-04:6604:3165,4,0:3425,10,0 +MT 1465 . C A, . base_quality;t_lod CONTQ=93;DP=6789;ECNT=22;MBQ=29,12,0;MFRL=354,351,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.465e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,14,0:1.718e-04,1.501e-04:6604:3165,4,0:3425,10,0 MT 1466 . C . . END=1466 GT:DP:MIN_DP:TLOD 0/0:6593:6593:-3.792e+00 -MT 1467 . C A, . base_quality;t_lod CONTQ=93;DP=6795;ECNT=22;MBQ=29,11,0;MFRL=354,415,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.512e-03;SAPP=2.083e-04,1.640e-04,1.000;TLOD=-3.503e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6604,10,0:1.571e-04,1.498e-04:6614:3171,4,0:3433,6,0 +MT 1467 . C A, . base_quality;t_lod CONTQ=93;DP=6795;ECNT=22;MBQ=29,11,0;MFRL=354,415,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.503e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6604,10,0:1.571e-04,1.498e-04:6614:3171,4,0:3433,6,0 MT 1468 . T . . END=1471 GT:DP:MIN_DP:TLOD 0/0:6672:6660:-3.798e+00 -MT 1472 . G T, . base_quality;t_lod CONTQ=93;DP=6787;ECNT=22;MBQ=29,13,0;MFRL=354,442,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.211e-03;SAPP=4.107e-04,1.083e-04,0.999;TLOD=-3.404e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6600,8,0:1.925e-04,1.500e-04:6608:3153,3,0:3447,5,0 -MT 1473 . C A, . base_quality;t_lod CONTQ=93;DP=6791;ECNT=22;MBQ=25,13,0;MFRL=354,417,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.513e-03;SAPP=8.493e-04,8.352e-05,0.999;TLOD=-3.355e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6598,10,0:2.161e-04,1.501e-04:6608:3148,4,0:3450,6,0 +MT 1472 . G T, . base_quality;t_lod CONTQ=93;DP=6787;ECNT=22;MBQ=29,13,0;MFRL=354,442,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.404e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6600,8,0:1.925e-04,1.500e-04:6608:3153,3,0:3447,5,0 +MT 1473 . C A, . base_quality;t_lod CONTQ=93;DP=6791;ECNT=22;MBQ=25,13,0;MFRL=354,417,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.355e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6598,10,0:2.161e-04,1.501e-04:6608:3148,4,0:3450,6,0 MT 1474 . G . . END=1495 GT:DP:MIN_DP:TLOD 0/0:7088:6934:-3.817e+00 MT 1496 . T . . END=1497 GT:DP:MIN_DP:TLOD 0/0:7172:7156:-3.489e+00 MT 1498 . C . . END=1502 GT:DP:MIN_DP:TLOD 0/0:7178:7166:-3.833e+00 @@ -1149,39 +1147,39 @@ MT 2581 . A . . END=2581 GT:DP:MIN_DP:TLOD 0/0:7310:7310:-3.380e+00 MT 2582 . A . . END=2583 GT:DP:MIN_DP:TLOD 0/0:7247:7236:-3.781e+00 MT 2584 . C . . END=2584 GT:DP:MIN_DP:TLOD 0/0:7258:7258:-3.301e+00 MT 2585 . G . . END=2587 GT:DP:MIN_DP:TLOD 0/0:7275:7223:-3.850e+00 -MT 2588 . C T, . base_quality;t_lod CONTQ=93;DP=6968;ECNT=21;MBQ=29,5,0;MFRL=343,306,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.415e-04;SAPP=8.040e-05,1.656e-04,1.000;TLOD=-3.534e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6792,3,0:1.461e-04,1.458e-04:6795:3384,2,0:3408,1,0 +MT 2588 . C T, . base_quality;t_lod CONTQ=93;DP=6968;ECNT=21;MBQ=29,5,0;MFRL=343,306,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.534e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6792,3,0:1.461e-04,1.458e-04:6795:3384,2,0:3408,1,0 MT 2589 . A . . END=2592 GT:DP:MIN_DP:TLOD 0/0:6863:6850:-3.827e+00 -MT 2593 . G T, . base_quality;t_lod CONTQ=93;DP=6978;ECNT=21;MBQ=29,12,0;MFRL=344,427,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.364e-04;SAPP=1.055e-04,1.595e-04,1.000;TLOD=-3.534e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6785,5,0:1.463e-04,1.458e-04:6790:3385,1,0:3400,4,0 +MT 2593 . G T, . base_quality;t_lod CONTQ=93;DP=6978;ECNT=21;MBQ=29,12,0;MFRL=344,427,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.534e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6785,5,0:1.463e-04,1.458e-04:6790:3385,1,0:3400,4,0 MT 2594 . T . . END=2597 GT:DP:MIN_DP:TLOD 0/0:6861:6858:-3.830e+00 -MT 2598 . A C, . base_quality;t_lod CONTQ=93;DP=6995;ECNT=21;MBQ=29,10,0;MFRL=345,350,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.761e-03;SAPP=1.070e-04,4.737e-04,0.999;TLOD=-3.514e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6803,12,0:1.533e-04,1.454e-04:6815:3390,8,0:3413,4,0 +MT 2598 . A C, . base_quality;t_lod CONTQ=93;DP=6995;ECNT=21;MBQ=29,10,0;MFRL=345,350,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.514e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6803,12,0:1.533e-04,1.454e-04:6815:3390,8,0:3413,4,0 MT 2599 . T . . END=2603 GT:DP:MIN_DP:TLOD 0/0:6881:6874:-3.833e+00 -MT 2604 . A C, . base_quality;t_lod CONTQ=93;DP=7004;ECNT=21;MBQ=29,8,0;MFRL=345,407,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.518e-03;SAPP=1.511e-04,6.809e-04,0.999;TLOD=-3.509e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6799,24,0:1.550e-04,1.456e-04:6823:3403,7,0:3396,17,0 -MT 2605 . C A, . base_quality;t_lod CONTQ=93;DP=7006;ECNT=21;MBQ=29,13,0;MFRL=345,413,0;MMQ=60,60,0;MPOS=61,0;POPAF=7.30,7.30;SAAF=0.010,0.00,5.861e-04;SAPP=4.868e-05,1.088e-03,0.999;TLOD=-3.515e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6821,4,0:1.528e-04,1.451e-04:6825:3405,3,0:3416,1,0 -MT 2606 . T C,G, . base_quality;t_lod CONTQ=93;DP=7014;ECNT=21;MBQ=29,9,7,0;MFRL=344,414,447,0;MMQ=60,60,60,0;MPOS=26,23,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.320e-03;SAPP=1.065e-04,4.196e-04,0.999;TLOD=-2.853e+00,-3.329e+00,-3.361e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6807,9,14,0:3.491e-04,1.562e-04,1.452e-04:6830:3396,4,8,0:3411,5,6,0 -MT 2607 . T C, . t_lod CONTQ=93;DP=7012;ECNT=21;MBQ=29,23,0;MFRL=345,382,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.247e-04;SAPP=1.953e-04,8.788e-05,1.000;TLOD=-3.457e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6894,5,0:1.756e-04,1.440e-04:6899:3430,1,0:3464,4,0 -MT 2608 . G T, . base_quality;t_lod CONTQ=93;DP=7014;ECNT=21;MBQ=29,6,0;MFRL=345,318,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.170e-03;SAPP=8.486e-05,6.770e-04,0.999;TLOD=-3.522e+00,-3.538e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6831,8,0:1.503e-04,1.450e-04:6839:3396,5,0:3435,3,0 +MT 2604 . A C, . base_quality;t_lod CONTQ=93;DP=7004;ECNT=21;MBQ=29,8,0;MFRL=345,407,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6799,24,0:1.550e-04,1.456e-04:6823:3403,7,0:3396,17,0 +MT 2605 . C A, . base_quality;t_lod CONTQ=93;DP=7006;ECNT=21;MBQ=29,13,0;MFRL=345,413,0;MMQ=60,60,0;MPOS=61,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6821,4,0:1.528e-04,1.451e-04:6825:3405,3,0:3416,1,0 +MT 2606 . T C,G, . base_quality;t_lod CONTQ=93;DP=7014;ECNT=21;MBQ=29,9,7,0;MFRL=344,414,447,0;MMQ=60,60,60,0;MPOS=26,23,0;POPAF=7.30,7.30,7.30;TLOD=-2.853e+00,-3.329e+00,-3.361e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6807,9,14,0:3.491e-04,1.562e-04,1.452e-04:6830:3396,4,8,0:3411,5,6,0 +MT 2607 . T C, . t_lod CONTQ=93;DP=7012;ECNT=21;MBQ=29,23,0;MFRL=345,382,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.457e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6894,5,0:1.756e-04,1.440e-04:6899:3430,1,0:3464,4,0 +MT 2608 . G T, . base_quality;t_lod CONTQ=93;DP=7014;ECNT=21;MBQ=29,6,0;MFRL=345,318,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.522e+00,-3.538e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6831,8,0:1.503e-04,1.450e-04:6839:3396,5,0:3435,3,0 MT 2609 . T . . END=2609 GT:DP:MIN_DP:TLOD 0/0:6905:6905:-3.756e+00 -MT 2610 . T G, . base_quality;t_lod CONTQ=93;DP=7026;ECNT=21;MBQ=29,7,0;MFRL=345,315,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.218e-03;SAPP=8.209e-05,7.279e-03,0.993;TLOD=-3.531e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6815,22,0:1.473e-04,1.451e-04:6837:3379,15,0:3436,7,0 -MT 2611 . C A, . base_quality;t_lod CONTQ=93;DP=7036;ECNT=21;MBQ=29,14,0;MFRL=345,455,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.725e-04;SAPP=1.655e-04,1.320e-04,1.000;TLOD=-3.469e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6871,6,0:1.689e-04,1.442e-04:6877:3418,1,0:3453,5,0 +MT 2610 . T G, . base_quality;t_lod CONTQ=93;DP=7026;ECNT=21;MBQ=29,7,0;MFRL=345,315,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.531e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6815,22,0:1.473e-04,1.451e-04:6837:3379,15,0:3436,7,0 +MT 2611 . C A, . base_quality;t_lod CONTQ=93;DP=7036;ECNT=21;MBQ=29,14,0;MFRL=345,455,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.469e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6871,6,0:1.689e-04,1.442e-04:6877:3418,1,0:3453,5,0 MT 2612 . C . . END=2615 GT:DP:MIN_DP:TLOD 0/0:6913:6908:-3.830e+00 -MT 2616 . A C, . base_quality;t_lod CONTQ=93;DP=7047;ECNT=21;MBQ=29,9,0;MFRL=345,400,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.469e-03;SAPP=2.613e-04,2.718e-04,0.999;TLOD=-3.489e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6867,17,0:1.625e-04,1.442e-04:6884:3403,8,0:3464,9,0 +MT 2616 . A C, . base_quality;t_lod CONTQ=93;DP=7047;ECNT=21;MBQ=29,9,0;MFRL=345,400,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.489e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6867,17,0:1.625e-04,1.442e-04:6884:3403,8,0:3464,9,0 MT 2617 . A . . END=2620 GT:DP:MIN_DP:TLOD 0/0:6897:6874:-3.825e+00 MT 2621 . G . . END=2621 GT:DP:MIN_DP:TLOD 0/0:6899:6899:-3.188e+00 -MT 2622 . G T, . base_quality;t_lod CONTQ=93;DP=7065;ECNT=21;MBQ=29,13,0;MFRL=345,404,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.157e-03;SAPP=1.259e-04,2.966e-04,1.000;TLOD=-3.527e+00,-3.542e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6908,8,0:1.486e-04,1.434e-04:6916:3448,4,0:3460,4,0 -MT 2623 . A G, . PASS CONTQ=93;DP=7061;ECNT=21;MBQ=29,29,0;MFRL=345,346,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.232,0.232,0.232;SAPP=2.637e-03,2.897e-03,0.994;TLOD=3538.80,-3.539e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5263,1593,0:0.231,1.447e-04:6856:2629,794,0:2634,799,0 +MT 2622 . G T, . base_quality;t_lod CONTQ=93;DP=7065;ECNT=21;MBQ=29,13,0;MFRL=345,404,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.527e+00,-3.542e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6908,8,0:1.486e-04,1.434e-04:6916:3448,4,0:3460,4,0 +MT 2623 . A G, . PASS CONTQ=93;DP=7061;ECNT=21;MBQ=29,29,0;MFRL=345,346,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=3538.80,-3.539e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5263,1593,0:0.231,1.447e-04:6856:2629,794,0:2634,799,0 MT 2624 . C . . END=2632 GT:DP:MIN_DP:TLOD 0/0:6908:6864:-3.831e+00 -MT 2633 . A C, . base_quality;t_lod CONTQ=93;DP=7035;ECNT=21;MBQ=29,8,0;MFRL=345,443,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.453e-03;SAPP=2.148e-04,1.541e-04,1.000;TLOD=-3.516e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6871,10,0:1.526e-04,1.442e-04:6881:3412,3,0:3459,7,0 -MT 2634 . T G, . base_quality;t_lod CONTQ=93;DP=7038;ECNT=21;MBQ=29,8,0;MFRL=345,356,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.035e-03;SAPP=1.311e-04,4.514e-04,0.999;TLOD=-3.501e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6865,14,0:1.580e-04,1.443e-04:6879:3410,8,0:3455,6,0 -MT 2635 . G T, . t_lod CONTQ=93;DP=7040;ECNT=21;MBQ=29,22,0;MFRL=345,348,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.808e-04;SAPP=1.259e-04,9.977e-05,1.000;TLOD=-3.446e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6883,4,0:1.782e-04,1.441e-04:6887:3423,3,0:3460,1,0 -MT 2636 . G A, . base_quality;t_lod CONTQ=93;DP=7037;ECNT=21;MBQ=29,7,0;MFRL=345,320,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.888e-04;SAPP=1.125e-04,9.174e-05,1.000;TLOD=-3.542e+00,-3.542e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6923,2,0:1.437e-04,1.435e-04:6925:3438,2,0:3485,0,0 +MT 2633 . A C, . base_quality;t_lod CONTQ=93;DP=7035;ECNT=21;MBQ=29,8,0;MFRL=345,443,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6871,10,0:1.526e-04,1.442e-04:6881:3412,3,0:3459,7,0 +MT 2634 . T G, . base_quality;t_lod CONTQ=93;DP=7038;ECNT=21;MBQ=29,8,0;MFRL=345,356,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.501e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6865,14,0:1.580e-04,1.443e-04:6879:3410,8,0:3455,6,0 +MT 2635 . G T, . t_lod CONTQ=93;DP=7040;ECNT=21;MBQ=29,22,0;MFRL=345,348,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.446e+00,-3.540e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6883,4,0:1.782e-04,1.441e-04:6887:3423,3,0:3460,1,0 +MT 2636 . G A, . base_quality;t_lod CONTQ=93;DP=7037;ECNT=21;MBQ=29,7,0;MFRL=345,320,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.542e+00,-3.542e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6923,2,0:1.437e-04,1.435e-04:6925:3438,2,0:3485,0,0 MT 2637 . C . . END=2644 GT:DP:MIN_DP:TLOD 0/0:6878:6824:-3.827e+00 -MT 2645 . G A,T, . base_quality;t_lod CONTQ=93;DP=6999;ECNT=21;MBQ=29,11,13,0;MFRL=345,194,402,0;MMQ=60,60,60,0;MPOS=67,15,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.462e-03;SAPP=9.517e-05,5.386e-04,0.999;TLOD=-3.361e+00,-3.206e+00,-3.361e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6830,1,10,0:1.451e-04,1.988e-04,1.450e-04:6841:3411,0,6,0:3419,1,4,0 +MT 2645 . G A,T, . base_quality;t_lod CONTQ=93;DP=6999;ECNT=21;MBQ=29,11,13,0;MFRL=345,194,402,0;MMQ=60,60,60,0;MPOS=67,15,0;POPAF=7.30,7.30,7.30;TLOD=-3.361e+00,-3.206e+00,-3.361e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6830,1,10,0:1.451e-04,1.988e-04,1.450e-04:6841:3411,0,6,0:3419,1,4,0 MT 2646 . G . . END=2648 GT:DP:MIN_DP:TLOD 0/0:6856:6843:-3.734e+00 -MT 2649 . T G, . base_quality;t_lod CONTQ=93;DP=7001;ECNT=21;MBQ=29,7,0;MFRL=345,456,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.051e-03;SAPP=2.664e-04,1.847e-04,1.000;TLOD=-3.505e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6811,14,0:1.563e-04,1.453e-04:6825:3406,10,0:3405,4,0 +MT 2649 . T G, . base_quality;t_lod CONTQ=93;DP=7001;ECNT=21;MBQ=29,7,0;MFRL=345,456,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6811,14,0:1.563e-04,1.453e-04:6825:3406,10,0:3405,4,0 MT 2650 . C . . END=2651 GT:DP:MIN_DP:TLOD 0/0:6890:6885:-3.751e+00 -MT 2652 . G T, . base_quality;t_lod CONTQ=93;DP=7006;ECNT=21;MBQ=29,13,0;MFRL=345,355,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.467e-03;SAPP=2.131e-04,1.562e-04,1.000;TLOD=-3.421e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6807,10,0:1.855e-04,1.452e-04:6817:3404,6,0:3403,4,0 +MT 2652 . G T, . base_quality;t_lod CONTQ=93;DP=7006;ECNT=21;MBQ=29,13,0;MFRL=345,355,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.421e+00,-3.537e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6807,10,0:1.855e-04,1.452e-04:6817:3404,6,0:3403,4,0 MT 2653 . C . . END=2657 GT:DP:MIN_DP:TLOD 0/0:6878:6870:-3.811e+00 -MT 2658 . T G, . base_quality;t_lod CONTQ=93;DP=6986;ECNT=21;MBQ=29,8,0;MFRL=346,320,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.800e-03;SAPP=2.579e-04,2.618e-04,0.999;TLOD=-3.516e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6766,19,0:1.527e-04,1.460e-04:6785:3376,14,0:3390,5,0 +MT 2658 . T G, . base_quality;t_lod CONTQ=93;DP=6986;ECNT=21;MBQ=29,8,0;MFRL=346,320,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6766,19,0:1.527e-04,1.460e-04:6785:3376,14,0:3390,5,0 MT 2659 . C . . END=2664 GT:DP:MIN_DP:TLOD 0/0:7296:7264:-3.799e+00 MT 2665 . T . . END=2665 GT:DP:MIN_DP:TLOD 0/0:7293:7293:-3.323e+00 MT 2666 . T . . END=2669 GT:DP:MIN_DP:TLOD 0/0:7289:7282:-3.825e+00 @@ -1286,76 +1284,76 @@ MT 2954 . C . . END=2954 GT:DP:MIN_DP:TLOD 0/0:7238:7238:-3.475e+00 MT 2955 . T . . END=2959 GT:DP:MIN_DP:TLOD 0/0:7252:7223:-3.770e+00 MT 2960 . T . . END=2960 GT:DP:MIN_DP:TLOD 0/0:7239:7239:-3.378e+00 MT 2961 . C . . END=2972 GT:DP:MIN_DP:TLOD 0/0:7292:7253:-3.818e+00 -MT 2973 . T G, . base_quality;t_lod CONTQ=93;DP=6919;ECNT=19;MBQ=29,8,0;MFRL=347,348,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.307e-03;SAPP=2.175e-05,0.661,0.339;TLOD=-3.351e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6704,29,0:2.247e-04,1.474e-04:6733:3323,17,0:3381,12,0 +MT 2973 . T G, . base_quality;t_lod CONTQ=93;DP=6919;ECNT=19;MBQ=29,8,0;MFRL=347,348,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.351e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6704,29,0:2.247e-04,1.474e-04:6733:3323,17,0:3381,12,0 MT 2974 . A . . END=2974 GT:DP:MIN_DP:TLOD 0/0:6752:6752:-3.752e+00 -MT 2975 . G T, . base_quality;t_lod CONTQ=93;DP=6926;ECNT=19;MBQ=29,13,0;MFRL=347,424,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.483e-03;SAPP=1.219e-04,3.123e-04,1.000;TLOD=-3.525e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6733,10,0:1.492e-04,1.469e-04:6743:3341,7,0:3392,3,0 -MT 2976 . G T, . base_quality;t_lod CONTQ=93;DP=6928;ECNT=19;MBQ=29,11,0;MFRL=347,399,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.223e-03;SAPP=7.419e-05,6.155e-03,0.994;TLOD=-3.208e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6732,15,0:2.844e-04,1.470e-04:6747:3337,12,0:3395,3,0 -MT 2977 . G T, . base_quality;t_lod CONTQ=93;DP=6928;ECNT=19;MBQ=29,15,0;MFRL=347,447,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.890e-04;SAPP=9.370e-05,2.922e-04,1.000;TLOD=-3.493e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6743,6,0:1.606e-04,1.468e-04:6749:3346,4,0:3397,2,0 +MT 2975 . G T, . base_quality;t_lod CONTQ=93;DP=6926;ECNT=19;MBQ=29,13,0;MFRL=347,424,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.525e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6733,10,0:1.492e-04,1.469e-04:6743:3341,7,0:3392,3,0 +MT 2976 . G T, . base_quality;t_lod CONTQ=93;DP=6928;ECNT=19;MBQ=29,11,0;MFRL=347,399,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.208e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6732,15,0:2.844e-04,1.470e-04:6747:3337,12,0:3395,3,0 +MT 2977 . G T, . base_quality;t_lod CONTQ=93;DP=6928;ECNT=19;MBQ=29,15,0;MFRL=347,447,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.493e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6743,6,0:1.606e-04,1.468e-04:6749:3346,4,0:3397,2,0 MT 2978 . T . . END=2981 GT:DP:MIN_DP:TLOD 0/0:6773:6769:-3.828e+00 -MT 2982 . C A, . base_quality;t_lod CONTQ=93;DP=6938;ECNT=19;MBQ=25,10,0;MFRL=347,392,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.922e-04;SAPP=2.863e-04,6.681e-05,1.000;TLOD=-3.531e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6750,4,0:1.472e-04,1.469e-04:6754:3357,0,0:3393,4,0 +MT 2982 . C A, . base_quality;t_lod CONTQ=93;DP=6938;ECNT=19;MBQ=25,10,0;MFRL=347,392,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-3.531e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6750,4,0:1.472e-04,1.469e-04:6754:3357,0,0:3393,4,0 MT 2983 . G . . END=2985 GT:DP:MIN_DP:TLOD 0/0:6752:6743:-3.822e+00 -MT 2986 . C A, . base_quality;t_lod CONTQ=93;DP=6945;ECNT=19;MBQ=29,13,0;MFRL=347,372,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.480e-03;SAPP=1.773e-04,1.865e-04,1.000;TLOD=-3.343e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6747,10,0:2.217e-04,1.466e-04:6757:3347,6,0:3400,4,0 +MT 2986 . C A, . base_quality;t_lod CONTQ=93;DP=6945;ECNT=19;MBQ=29,13,0;MFRL=347,372,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.343e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6747,10,0:2.217e-04,1.466e-04:6757:3347,6,0:3400,4,0 MT 2987 . T . . END=2987 GT:DP:MIN_DP:TLOD 0/0:6783:6783:-3.766e+00 -MT 2988 . C A, . base_quality;t_lod CONTQ=93;DP=6947;ECNT=19;MBQ=25,15,0;MFRL=347,382,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.775e-03;SAPP=9.669e-05,6.334e-04,0.999;TLOD=-2.818e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6750,12,0:4.555e-04,1.467e-04:6762:3348,6,0:3402,6,0 +MT 2988 . C A, . base_quality;t_lod CONTQ=93;DP=6947;ECNT=19;MBQ=25,15,0;MFRL=347,382,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-2.818e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6750,12,0:4.555e-04,1.467e-04:6762:3348,6,0:3402,6,0 MT 2989 . G . . END=2998 GT:DP:MIN_DP:TLOD 0/0:6810:6770:-3.829e+00 -MT 2999 . C A, . base_quality;t_lod CONTQ=93;DP=6971;ECNT=19;MBQ=29,10,0;MFRL=347,371,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.472e-03;SAPP=1.968e-03,6.776e-05,0.998;TLOD=-3.515e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6785,10,0:1.528e-04,1.459e-04:6795:3354,6,0:3431,4,0 +MT 2999 . C A, . base_quality;t_lod CONTQ=93;DP=6971;ECNT=19;MBQ=29,10,0;MFRL=347,371,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6785,10,0:1.528e-04,1.459e-04:6795:3354,6,0:3431,4,0 MT 3000 . A . . END=3000 GT:DP:MIN_DP:TLOD 0/0:6832:6832:-3.805e+00 -MT 3001 . G T, . base_quality;t_lod CONTQ=93;DP=6985;ECNT=19;MBQ=29,11,0;MFRL=346,349,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.176e-03;SAPP=7.771e-05,8.786e-04,0.999;TLOD=-3.384e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6793,8,0:2.040e-04,1.457e-04:6801:3360,6,0:3433,2,0 +MT 3001 . G T, . base_quality;t_lod CONTQ=93;DP=6985;ECNT=19;MBQ=29,11,0;MFRL=346,349,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.384e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6793,8,0:2.040e-04,1.457e-04:6801:3360,6,0:3433,2,0 MT 3002 . G . . END=3005 GT:DP:MIN_DP:TLOD 0/0:6827:6793:-3.828e+00 -MT 3006 . T G, . base_quality;t_lod CONTQ=93;DP=7010;ECNT=19;MBQ=29,7,0;MFRL=347,392,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.109e-03;SAPP=1.149e-04,3.806e-03,0.996;TLOD=-3.514e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6786,28,0:1.532e-04,1.456e-04:6814:3353,14,0:3433,14,0 +MT 3006 . T G, . base_quality;t_lod CONTQ=93;DP=7010;ECNT=19;MBQ=29,7,0;MFRL=347,392,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.514e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6786,28,0:1.532e-04,1.456e-04:6814:3353,14,0:3433,14,0 MT 3007 . C . . END=3009 GT:DP:MIN_DP:TLOD 0/0:6862:6845:-3.821e+00 -MT 3010 . G A, . PASS CONTQ=93;DP=6996;ECNT=19;MBQ=23,29,0;MFRL=321,346,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.026,0.023,0.951;TLOD=22336.57,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:21,6794,0:0.999,1.455e-04:6815:9,3356,0:12,3438,0 +MT 3010 . G A, . PASS CONTQ=93;DP=6996;ECNT=19;MBQ=23,29,0;MFRL=321,346,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=22336.57,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:21,6794,0:0.999,1.455e-04:6815:9,3356,0:12,3438,0 MT 3011 . A . . END=3012 GT:DP:MIN_DP:TLOD 0/0:6844:6836:-3.813e+00 -MT 3013 . G T, . base_quality;t_lod CONTQ=93;DP=6976;ECNT=19;MBQ=29,14,0;MFRL=346,429,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.473e-03;SAPP=1.836e-04,1.791e-04,1.000;TLOD=-3.531e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6781,10,0:1.471e-04,1.459e-04:6791:3344,6,0:3437,4,0 +MT 3013 . G T, . base_quality;t_lod CONTQ=93;DP=6976;ECNT=19;MBQ=29,14,0;MFRL=346,429,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.531e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6781,10,0:1.471e-04,1.459e-04:6791:3344,6,0:3437,4,0 MT 3014 . G . . END=3022 GT:DP:MIN_DP:TLOD 0/0:6799:6739:-3.829e+00 -MT 3023 . C A, . base_quality;t_lod CONTQ=93;DP=6948;ECNT=19;MBQ=29,11,0;MFRL=346,452,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.921e-03;SAPP=1.644e-04,2.594e-04,1.000;TLOD=-3.437e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6756,13,0:1.809e-04,1.465e-04:6769:3337,7,0:3419,6,0 +MT 3023 . C A, . base_quality;t_lod CONTQ=93;DP=6948;ECNT=19;MBQ=29,11,0;MFRL=346,452,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;TLOD=-3.437e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6756,13,0:1.809e-04,1.465e-04:6769:3337,7,0:3419,6,0 MT 3024 . T . . END=3030 GT:DP:MIN_DP:TLOD 0/0:6802:6786:-3.828e+00 -MT 3031 . G T, . base_quality;t_lod CONTQ=93;DP=6927;ECNT=19;MBQ=29,14,0;MFRL=345,441,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.480e-03;SAPP=2.994e-04,1.248e-04,1.000;TLOD=-3.154e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6747,10,0:3.053e-04,1.467e-04:6757:3318,5,0:3429,5,0 -MT 3032 . G T, . base_quality;t_lod CONTQ=93;DP=6923;ECNT=19;MBQ=29,14,0;MFRL=345,319,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.186e-03;SAPP=1.776e-04,1.979e-04,1.000;TLOD=-3.498e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6736,8,0:1.590e-04,1.469e-04:6744:3315,5,0:3421,3,0 +MT 3031 . G T, . base_quality;t_lod CONTQ=93;DP=6927;ECNT=19;MBQ=29,14,0;MFRL=345,441,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.154e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6747,10,0:3.053e-04,1.467e-04:6757:3318,5,0:3429,5,0 +MT 3032 . G T, . base_quality;t_lod CONTQ=93;DP=6923;ECNT=19;MBQ=29,14,0;MFRL=345,319,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.498e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6736,8,0:1.590e-04,1.469e-04:6744:3315,5,0:3421,3,0 MT 3033 . T . . END=3034 GT:DP:MIN_DP:TLOD 0/0:6803:6801:-3.765e+00 -MT 3035 . C A, . base_quality;t_lod CONTQ=93;DP=6921;ECNT=19;MBQ=25,11,0;MFRL=345,302,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.334e-03;SAPP=4.755e-03,5.825e-05,0.995;TLOD=-3.486e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6736,9,0:1.635e-04,1.471e-04:6745:3307,3,0:3429,6,0 -MT 3036 . G T, . base_quality;t_lod CONTQ=93;DP=6923;ECNT=19;MBQ=25,16,0;MFRL=345,498,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.414e-04;SAPP=1.676e-04,1.032e-04,1.000;TLOD=-3.467e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6739,5,0:1.703e-04,1.470e-04:6744:3301,4,0:3438,1,0 +MT 3035 . C A, . base_quality;t_lod CONTQ=93;DP=6921;ECNT=19;MBQ=25,11,0;MFRL=345,302,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.486e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6736,9,0:1.635e-04,1.471e-04:6745:3307,3,0:3429,6,0 +MT 3036 . G T, . base_quality;t_lod CONTQ=93;DP=6923;ECNT=19;MBQ=25,16,0;MFRL=345,498,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.467e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6739,5,0:1.703e-04,1.470e-04:6744:3301,4,0:3438,1,0 MT 3037 . T . . END=3038 GT:DP:MIN_DP:TLOD 0/0:6779:6773:-3.801e+00 -MT 3039 . T G, . base_quality;t_lod CONTQ=93;DP=6916;ECNT=19;MBQ=29,9,0;MFRL=345,391,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.784e-03;SAPP=9.381e-05,7.090e-04,0.999;TLOD=-3.505e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6716,12,0:1.562e-04,1.473e-04:6728:3287,8,0:3429,4,0 +MT 3039 . T G, . base_quality;t_lod CONTQ=93;DP=6916;ECNT=19;MBQ=29,9,0;MFRL=345,391,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6716,12,0:1.562e-04,1.473e-04:6728:3287,8,0:3429,4,0 MT 3040 . G . . END=3041 GT:DP:MIN_DP:TLOD 0/0:6770:6765:-3.826e+00 MT 3042 . T . . END=3042 GT:DP:MIN_DP:TLOD 0/0:6778:6778:-3.431e+00 -MT 3043 . C A, . base_quality;t_lod CONTQ=93;DP=6903;ECNT=19;MBQ=29,12,0;MFRL=344,411,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.925e-04;SAPP=7.775e-04,6.646e-05,0.999;TLOD=-3.438e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6717,6,0:1.800e-04,1.474e-04:6723:3278,3,0:3439,3,0 +MT 3043 . C A, . base_quality;t_lod CONTQ=93;DP=6903;ECNT=19;MBQ=29,12,0;MFRL=344,411,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.438e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6717,6,0:1.800e-04,1.474e-04:6723:3278,3,0:3439,3,0 MT 3044 . A . . END=3045 GT:DP:MIN_DP:TLOD 0/0:7235:7226:-3.619e+00 MT 3046 . C . . END=3046 GT:DP:MIN_DP:TLOD 0/0:7151:7151:-3.458e+00 MT 3047 . G . . END=3055 GT:DP:MIN_DP:TLOD 0/0:7248:7202:-3.831e+00 MT 3056 . C . . END=3056 GT:DP:MIN_DP:TLOD 0/0:7260:7260:-3.389e+00 MT 3057 . C . . END=3060 GT:DP:MIN_DP:TLOD 0/0:7277:7217:-3.823e+00 -MT 3061 . G T, . base_quality;t_lod CONTQ=93;DP=6772;ECNT=14;MBQ=25,12,0;MFRL=343,494,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.066e-04;SAPP=1.217e-04,1.127e-04,1.000;TLOD=-3.521e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,4,0:1.507e-04,1.503e-04:6594:3291,4,0:3299,0,0 +MT 3061 . G T, . base_quality;t_lod CONTQ=93;DP=6772;ECNT=14;MBQ=25,12,0;MFRL=343,494,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.521e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,4,0:1.507e-04,1.503e-04:6594:3291,4,0:3299,0,0 MT 3062 . T . . END=3079 GT:DP:MIN_DP:TLOD 0/0:6666:6635:-3.825e+00 -MT 3080 . G T, . base_quality;t_lod CONTQ=93;DP=6807;ECNT=14;MBQ=29,16,0;MFRL=343,337,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.040e-04;SAPP=3.060e-04,6.676e-05,1.000;TLOD=-3.466e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6619,4,0:1.704e-04,1.495e-04:6623:3264,1,0:3355,3,0 +MT 3080 . G T, . base_quality;t_lod CONTQ=93;DP=6807;ECNT=14;MBQ=29,16,0;MFRL=343,337,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.466e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6619,4,0:1.704e-04,1.495e-04:6623:3264,1,0:3355,3,0 MT 3081 . A . . END=3081 GT:DP:MIN_DP:TLOD 0/0:6675:6675:-3.466e+00 MT 3082 . G . . END=3089 GT:DP:MIN_DP:TLOD 0/0:6649:6616:-3.812e+00 -MT 3090 . G T, . base_quality;t_lod CONTQ=93;DP=6797;ECNT=14;MBQ=29,11,0;MFRL=342,295,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.079e-04;SAPP=1.654e-04,1.470e-04,1.000;TLOD=-3.449e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6603,6,0:1.767e-04,1.499e-04:6609:3275,4,0:3328,2,0 +MT 3090 . G T, . base_quality;t_lod CONTQ=93;DP=6797;ECNT=14;MBQ=29,11,0;MFRL=342,295,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.449e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6603,6,0:1.767e-04,1.499e-04:6609:3275,4,0:3328,2,0 MT 3091 . G . . END=3096 GT:DP:MIN_DP:TLOD 0/0:6615:6603:-3.807e+00 -MT 3097 . T G, . base_quality;t_lod CONTQ=93;DP=6803;ECNT=14;MBQ=29,8,0;MFRL=342,360,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.272e-03;SAPP=5.635e-04,1.435e-04,0.999;TLOD=-3.505e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6587,15,0:1.566e-04,1.500e-04:6602:3267,6,0:3320,9,0 +MT 3097 . T G, . base_quality;t_lod CONTQ=93;DP=6803;ECNT=14;MBQ=29,8,0;MFRL=342,360,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6587,15,0:1.566e-04,1.500e-04:6602:3267,6,0:3320,9,0 MT 3098 . T . . END=3100 GT:DP:MIN_DP:TLOD 0/0:6690:6675:-3.822e+00 -MT 3101 . A C, . base_quality;t_lod CONTQ=93;DP=6818;ECNT=14;MBQ=29,8,0;MFRL=342,416,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.264e-03;SAPP=1.095e-03,1.097e-04,0.999;TLOD=-3.520e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6609,15,0:1.510e-04,1.495e-04:6624:3266,7,0:3343,8,0 +MT 3101 . A C, . base_quality;t_lod CONTQ=93;DP=6818;ECNT=14;MBQ=29,8,0;MFRL=342,416,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6609,15,0:1.510e-04,1.495e-04:6624:3266,7,0:3343,8,0 MT 3102 . T . . END=3104 GT:DP:MIN_DP:TLOD 0/0:6697:6688:-3.824e+00 -MT 3105 . AC A, . t_lod CONTQ=93;DP=6791;ECNT=14;MBQ=29,25,0;MFRL=341,406,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.517e-04;SAPP=8.104e-05,1.702e-04,1.000;TLOD=-3.524e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6638,3,0:1.496e-04,1.493e-04:6641:3272,3,0:3366,0,0 +MT 3105 . AC A, . t_lod CONTQ=93;DP=6791;ECNT=14;MBQ=29,25,0;MFRL=341,406,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.524e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6638,3,0:1.496e-04,1.493e-04:6641:3272,3,0:3366,0,0 MT 3107 . N . . END=3107 GT:DP:MIN_DP:TLOD 0/0:6695:6695:13981.04 MT 3108 . T . . END=3110 GT:DP:MIN_DP:TLOD 0/0:6637:6637:-3.821e+00 -MT 3111 . A C, . base_quality;t_lod CONTQ=93;DP=6751;ECNT=14;MBQ=29,9,0;MFRL=341,321,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.967e-03;SAPP=1.933e-04,2.339e-04,1.000;TLOD=-3.503e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6597,13,0:1.573e-04,1.503e-04:6610:3262,8,0:3335,5,0 +MT 3111 . A C, . base_quality;t_lod CONTQ=93;DP=6751;ECNT=14;MBQ=29,9,0;MFRL=341,321,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.503e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6597,13,0:1.573e-04,1.503e-04:6610:3262,8,0:3335,5,0 MT 3112 . A . . END=3112 GT:DP:MIN_DP:TLOD 0/0:6653:6653:-3.790e+00 -MT 3113 . A C, . base_quality;t_lod CONTQ=93;DP=6786;ECNT=14;MBQ=29,8,0;MFRL=340,404,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.548e-03;SAPP=1.135e-04,4.979e-03,0.995;TLOD=-3.389e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6566,30,0:2.051e-04,1.505e-04:6596:3251,14,0:3315,16,0 +MT 3113 . A C, . base_quality;t_lod CONTQ=93;DP=6786;ECNT=14;MBQ=29,8,0;MFRL=340,404,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.389e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6566,30,0:2.051e-04,1.505e-04:6596:3251,14,0:3315,16,0 MT 3114 . T . . END=3123 GT:DP:MIN_DP:TLOD 0/0:6641:6598:-3.810e+00 MT 3124 . T . . END=3124 GT:DP:MIN_DP:TLOD 0/0:6644:6644:-3.467e+00 -MT 3125 . A C, . base_quality;t_lod CONTQ=93;DP=6794;ECNT=14;MBQ=29,9,0;MFRL=341,323,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.516e-03;SAPP=2.083e-04,1.645e-04,1.000;TLOD=-3.518e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6588,10,0:1.517e-04,1.501e-04:6598:3265,2,0:3323,8,0 +MT 3125 . A C, . base_quality;t_lod CONTQ=93;DP=6794;ECNT=14;MBQ=29,9,0;MFRL=341,323,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.518e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6588,10,0:1.517e-04,1.501e-04:6598:3265,2,0:3323,8,0 MT 3126 . C . . END=3128 GT:DP:MIN_DP:TLOD 0/0:6637:6608:-3.816e+00 MT 3129 . A . . END=3129 GT:DP:MIN_DP:TLOD 0/0:6652:6652:-3.268e+00 MT 3130 . A . . END=3130 GT:DP:MIN_DP:TLOD 0/0:6658:6658:-3.795e+00 -MT 3131 . G A, . base_quality;t_lod CONTQ=93;DP=6763;ECNT=14;MBQ=29,17,0;MFRL=341,420,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.498e-04;SAPP=4.946e-05,1.229e-04,1.000;TLOD=-3.526e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6676,1,0:1.490e-04,1.489e-04:6677:3296,1,0:3380,0,0 +MT 3131 . G A, . base_quality;t_lod CONTQ=93;DP=6763;ECNT=14;MBQ=29,17,0;MFRL=341,420,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.526e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6676,1,0:1.490e-04,1.489e-04:6677:3296,1,0:3380,0,0 MT 3132 . G . . END=3133 GT:DP:MIN_DP:TLOD 0/0:6651:6646:-3.819e+00 -MT 3134 . C A, . base_quality;t_lod CONTQ=93;DP=6734;ECNT=14;MBQ=29,13,0;MFRL=341,304,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.676e-03;SAPP=7.166e-05,2.372e-03,0.998;TLOD=-3.455e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6551,11,0:1.758e-04,1.510e-04:6562:3198,8,0:3353,3,0 +MT 3134 . C A, . base_quality;t_lod CONTQ=93;DP=6734;ECNT=14;MBQ=29,13,0;MFRL=341,304,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.455e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6551,11,0:1.758e-04,1.510e-04:6562:3198,8,0:3353,3,0 MT 3135 . A . . END=3139 GT:DP:MIN_DP:TLOD 0/0:6631:6625:-3.815e+00 -MT 3140 . A C, . base_quality;t_lod CONTQ=93;DP=6712;ECNT=14;MBQ=29,8,0;MFRL=341,391,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.759e-03;SAPP=0.239,4.351e-05,0.761;TLOD=-3.234e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6506,18,0:2.822e-04,1.518e-04:6524:3196,6,0:3310,12,0 +MT 3140 . A C, . base_quality;t_lod CONTQ=93;DP=6712;ECNT=14;MBQ=29,8,0;MFRL=341,391,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.234e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6506,18,0:2.822e-04,1.518e-04:6524:3196,6,0:3310,12,0 MT 3141 . A . . END=3145 GT:DP:MIN_DP:TLOD 0/0:6621:6617:-3.813e+00 -MT 3146 . G T, . base_quality;t_lod CONTQ=93;DP=6710;ECNT=14;MBQ=29,14,0;MFRL=342,347,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.532e-03;SAPP=2.007e-04,1.721e-04,1.000;TLOD=-3.492e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6518,10,0:1.610e-04,1.518e-04:6528:3167,6,0:3351,4,0 -MT 3147 . G T, . base_quality;t_lod CONTQ=93;DP=6717;ECNT=14;MBQ=29,14,0;MFRL=342,395,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.378e-03;SAPP=1.562e-03,7.138e-05,0.998;TLOD=-3.313e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6520,9,0:2.364e-04,1.517e-04:6529:3181,3,0:3339,6,0 +MT 3146 . G T, . base_quality;t_lod CONTQ=93;DP=6710;ECNT=14;MBQ=29,14,0;MFRL=342,347,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.492e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6518,10,0:1.610e-04,1.518e-04:6528:3167,6,0:3351,4,0 +MT 3147 . G T, . base_quality;t_lod CONTQ=93;DP=6717;ECNT=14;MBQ=29,14,0;MFRL=342,395,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.313e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6520,9,0:2.364e-04,1.517e-04:6529:3181,3,0:3339,6,0 MT 3148 . C . . END=3158 GT:DP:MIN_DP:TLOD 0/0:7197:7166:-3.821e+00 MT 3159 . A . . END=3159 GT:DP:MIN_DP:TLOD 0/0:7182:7182:-3.376e+00 MT 3160 . A . . END=3162 GT:DP:MIN_DP:TLOD 0/0:7092:7042:-3.734e+00 @@ -2058,17 +2056,17 @@ MT 4758 . A . . END=4758 GT:DP:MIN_DP:TLOD 0/0:100:100:-4.090e-01 MT 4759 . T . . END=4761 GT:DP:MIN_DP:TLOD 0/0:100:98:-1.936e+00 MT 4762 . T . . END=4764 GT:DP:MIN_DP:TLOD 0/0:97:93:-1.477e+00 MT 4765 . T . . END=4768 GT:DP:MIN_DP:TLOD 0/0:208:139:-2.407e+00 -MT 4769 . A C,T, . base_quality;t_lod CONTQ=93;DP=381;ECNT=3;MBQ=10,2,10,0;MFRL=403,378,398,0;MMQ=60,60,60,0;MPOS=40,44,0;POPAF=7.30,7.30,7.30;SAAF=0.121,0.101,0.140;SAPP=7.329e-03,0.053,0.940;TLOD=0.198,1.54,-1.597e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:37,5,6,0:0.061,0.129,0.013:48:21,2,3,0:16,3,3,0 +MT 4769 . A C,T, . base_quality;t_lod CONTQ=93;DP=381;ECNT=3;MBQ=10,2,10,0;MFRL=403,378,398,0;MMQ=60,60,60,0;MPOS=40,44,0;POPAF=7.30,7.30,7.30;TLOD=0.198,1.54,-1.597e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:37,5,6,0:0.061,0.129,0.013:48:21,2,3,0:16,3,3,0 MT 4770 . G . . END=4770 GT:DP:MIN_DP:TLOD 0/0:325:325:-2.491e+00 MT 4771 . C . . END=4780 GT:DP:MIN_DP:TLOD 0/0:568:368:-2.891e+00 -MT 4781 . A G, . PASS CONTQ=93;DP=943;ECNT=3;MBQ=23,29,0;MFRL=379,342,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.030,0.024,0.946;TLOD=2717.22,-2.649e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,854,0:0.997,1.122e-03:855:1,419,0:0,435,0 +MT 4781 . A G, . PASS CONTQ=93;DP=943;ECNT=3;MBQ=23,29,0;MFRL=379,342,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=2717.22,-2.649e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,854,0:0.997,1.122e-03:855:1,419,0:0,435,0 MT 4782 . A . . END=4784 GT:DP:MIN_DP:TLOD 0/0:922:877:-2.988e+00 MT 4785 . C . . END=4787 GT:DP:MIN_DP:TLOD 0/0:1053:1012:-3.041e+00 MT 4788 . G . . END=4788 GT:DP:MIN_DP:TLOD 0/0:1134:1134:-2.997e+00 MT 4789 . G . . END=4793 GT:DP:MIN_DP:TLOD 0/0:1247:1168:-3.120e+00 MT 4794 . G . . END=4794 GT:DP:MIN_DP:TLOD 0/0:1357:1357:-2.744e+00 MT 4795 . C . . END=4811 GT:DP:MIN_DP:TLOD 0/0:1776:1416:-3.330e+00 -MT 4812 . G T, . base_quality;t_lod CONTQ=93;DP=2282;ECNT=3;MBQ=28,17,0;MFRL=343,379,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.132e-04;SAPP=6.595e-04,1.769e-04,0.999;TLOD=-2.991e+00,-3.047e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2188,2,0:5.093e-04,4.494e-04:2190:1071,2,0:1117,0,0 +MT 4812 . G T, . base_quality;t_lod CONTQ=93;DP=2282;ECNT=3;MBQ=28,17,0;MFRL=343,379,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-2.991e+00,-3.047e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2188,2,0:5.093e-04,4.494e-04:2190:1071,2,0:1117,0,0 MT 4813 . T . . END=4831 GT:DP:MIN_DP:TLOD 0/0:2829:2378:-3.461e+00 MT 4832 . C . . END=4832 GT:DP:MIN_DP:TLOD 0/0:3292:3292:-3.512e+00 MT 4833 . A . . END=4833 GT:DP:MIN_DP:TLOD 0/0:3318:3318:-2.629e+00 @@ -2236,30 +2234,30 @@ MT 5235 . C . . END=5235 GT:DP:MIN_DP:TLOD 0/0:1642:1642:-2.762e+00 MT 5236 . C . . END=5261 GT:DP:MIN_DP:TLOD 0/0:2271:1679:-3.431e+00 MT 5262 . G . . END=5262 GT:DP:MIN_DP:TLOD 0/0:2871:2871:-2.768e+00 MT 5263 . C . . END=5263 GT:DP:MIN_DP:TLOD 0/0:2981:2981:-3.464e+00 -MT 5264 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=2958;ECNT=19;MBQ=29,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=1.081e-04,1.046e-04,1.000;TLOD=-3.170e+00,-3.170e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2958,0,0:3.378e-04,3.378e-04:2958:1462,0,0:1496,0,0 +MT 5264 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=2958;ECNT=19;MBQ=29,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.170e+00,-3.170e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2958,0,0:3.378e-04,3.378e-04:2958:1462,0,0:1496,0,0 MT 5265 . A . . END=5273 GT:DP:MIN_DP:TLOD 0/0:3059:2894:-3.500e+00 MT 5274 . G . . END=5274 GT:DP:MIN_DP:TLOD 0/0:3267:3267:-3.504e+00 MT 5275 . A . . END=5275 GT:DP:MIN_DP:TLOD 0/0:3319:3319:-3.493e+00 MT 5276 . A . . END=5276 GT:DP:MIN_DP:TLOD 0/0:3358:3358:-3.509e+00 -MT 5277 . T C, . base_quality;t_lod CONTQ=93;DP=3528;ECNT=19;MBQ=29,8,0;MFRL=334,444,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.618e-03;SAPP=1.478e-04,2.129e-03,0.998;TLOD=-3.234e+00,-3.239e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3429,9,0:2.920e-04,2.886e-04:3438:1694,4,0:1735,5,0 +MT 5277 . T C, . base_quality;t_lod CONTQ=93;DP=3528;ECNT=19;MBQ=29,8,0;MFRL=334,444,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.234e+00,-3.239e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3429,9,0:2.920e-04,2.886e-04:3438:1694,4,0:1735,5,0 MT 5278 . T . . END=5278 GT:DP:MIN_DP:TLOD 0/0:3452:3452:-3.534e+00 MT 5279 . C . . END=5279 GT:DP:MIN_DP:TLOD 0/0:3514:3514:-3.084e+00 MT 5280 . A . . END=5280 GT:DP:MIN_DP:TLOD 0/0:3560:3560:-3.530e+00 MT 5281 . C . . END=5281 GT:DP:MIN_DP:TLOD 0/0:3591:3591:-3.380e+00 -MT 5282 . A C, . base_quality;t_lod CONTQ=93;DP=3756;ECNT=19;MBQ=29,9,0;MFRL=335,377,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.276e-03;SAPP=9.866e-05,0.043,0.957;TLOD=-3.124e+00,-3.266e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3651,12,0:3.626e-04,2.710e-04:3663:1791,7,0:1860,5,0 +MT 5282 . A C, . base_quality;t_lod CONTQ=93;DP=3756;ECNT=19;MBQ=29,9,0;MFRL=335,377,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.124e+00,-3.266e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3651,12,0:3.626e-04,2.710e-04:3663:1791,7,0:1860,5,0 MT 5283 . A . . END=5283 GT:DP:MIN_DP:TLOD 0/0:3677:3677:-3.546e+00 MT 5284 . A . . END=5284 GT:DP:MIN_DP:TLOD 0/0:3716:3716:-3.324e+00 -MT 5285 . A C, . base_quality;t_lod CONTQ=93;DP=3880;ECNT=19;MBQ=29,9,0;MFRL=336,336,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.225e-03;SAPP=1.819e-04,0.021,0.979;TLOD=-2.549e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3759,35,0:8.905e-04,2.634e-04:3794:1840,25,0:1919,10,0 +MT 5285 . A C, . base_quality;t_lod CONTQ=93;DP=3880;ECNT=19;MBQ=29,9,0;MFRL=336,336,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-2.549e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3759,35,0:8.905e-04,2.634e-04:3794:1840,25,0:1919,10,0 MT 5286 . A . . END=5286 GT:DP:MIN_DP:TLOD 0/0:3801:3801:-3.486e+00 MT 5287 . A . . END=5289 GT:DP:MIN_DP:TLOD 0/0:3887:3836:-3.592e+00 -MT 5290 . A C, . base_quality;t_lod CONTQ=93;DP=4089;ECNT=19;MBQ=29,7,0;MFRL=336,348,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.246e-03;SAPP=1.077e-04,0.013,0.987;TLOD=-3.235e+00,-3.304e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3992,13,0:2.924e-04,2.484e-04:4005:1972,5,0:2020,8,0 +MT 5290 . A C, . base_quality;t_lod CONTQ=93;DP=4089;ECNT=19;MBQ=29,7,0;MFRL=336,348,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.235e+00,-3.304e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3992,13,0:2.924e-04,2.484e-04:4005:1972,5,0:2020,8,0 MT 5291 . T . . END=5293 GT:DP:MIN_DP:TLOD 0/0:4031:4006:-3.601e+00 -MT 5294 . C A, . base_quality;t_lod CONTQ=93;DP=4265;ECNT=19;MBQ=29,12,0;MFRL=337,360,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.677e-03;SAPP=3.579e-04,1.926e-04,0.999;TLOD=-3.062e+00,-3.323e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4167,7,0:4.051e-04,2.377e-04:4174:2053,2,0:2114,5,0 -MT 5295 . C A, . base_quality;t_lod CONTQ=93;DP=4312;ECNT=19;MBQ=29,11,0;MFRL=337,331,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.185e-03;SAPP=1.684e-04,3.120e-04,1.000;TLOD=-3.254e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4216,5,0:2.767e-04,2.350e-04:4221:2078,0,0:2138,5,0 +MT 5294 . C A, . base_quality;t_lod CONTQ=93;DP=4265;ECNT=19;MBQ=29,12,0;MFRL=337,360,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.062e+00,-3.323e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4167,7,0:4.051e-04,2.377e-04:4174:2053,2,0:2114,5,0 +MT 5295 . C A, . base_quality;t_lod CONTQ=93;DP=4312;ECNT=19;MBQ=29,11,0;MFRL=337,331,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.254e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4216,5,0:2.767e-04,2.350e-04:4221:2078,0,0:2138,5,0 MT 5296 . T . . END=5297 GT:DP:MIN_DP:TLOD 0/0:4288:4263:-3.627e+00 MT 5298 . A . . END=5298 GT:DP:MIN_DP:TLOD 0/0:4359:4359:-3.432e+00 MT 5299 . T . . END=5302 GT:DP:MIN_DP:TLOD 0/0:4468:4392:-3.647e+00 -MT 5303 . C A, . t_lod CONTQ=93;DP=4670;ECNT=19;MBQ=29,20,0;MFRL=338,397,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.369e-04;SAPP=1.369e-04,1.436e-04,1.000;TLOD=-3.258e+00,-3.363e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4576,2,0:2.707e-04,2.165e-04:4578:2262,0,0:2314,2,0 +MT 5303 . C A, . t_lod CONTQ=93;DP=4670;ECNT=19;MBQ=29,20,0;MFRL=338,397,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.258e+00,-3.363e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4576,2,0:2.707e-04,2.165e-04:4578:2262,0,0:2314,2,0 MT 5304 . C . . END=5309 GT:DP:MIN_DP:TLOD 0/0:4738:4623:-3.669e+00 MT 5310 . A . . END=5310 GT:DP:MIN_DP:TLOD 0/0:4901:4901:-3.218e+00 MT 5311 . T . . END=5312 GT:DP:MIN_DP:TLOD 0/0:4969:4935:-3.684e+00 @@ -2269,26 +2267,26 @@ MT 5316 . G . . END=5316 GT:DP:MIN_DP:TLOD 0/0:5106:5106:-3.193e+00 MT 5317 . C . . END=5317 GT:DP:MIN_DP:TLOD 0/0:5223:5223:-3.631e+00 MT 5318 . C . . END=5318 GT:DP:MIN_DP:TLOD 0/0:5284:5284:-3.448e+00 MT 5319 . A . . END=5320 GT:DP:MIN_DP:TLOD 0/0:5331:5318:-3.651e+00 -MT 5321 . C A, . base_quality;t_lod CONTQ=93;DP=5480;ECNT=19;MBQ=29,13,0;MFRL=341,348,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.561e-04;SAPP=7.782e-04,6.028e-05,0.999;TLOD=-3.289e+00,-3.433e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5392,3,0:2.459e-04,1.845e-04:5395:2638,0,0:2754,3,0 +MT 5321 . C A, . base_quality;t_lod CONTQ=93;DP=5480;ECNT=19;MBQ=29,13,0;MFRL=341,348,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.289e+00,-3.433e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5392,3,0:2.459e-04,1.845e-04:5395:2638,0,0:2754,3,0 MT 5322 . A . . END=5324 GT:DP:MIN_DP:TLOD 0/0:5452:5449:-3.705e+00 -MT 5325 . A C, . base_quality;t_lod CONTQ=93;DP=5639;ECNT=19;MBQ=28,5,0;MFRL=341,371,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.744e-03;SAPP=1.309e-11,1.000,1.991e-07;TLOD=-3.093e+00,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5488,54,0:3.809e-04,1.808e-04:5542:2671,28,0:2817,26,0 +MT 5325 . A C, . base_quality;t_lod CONTQ=93;DP=5639;ECNT=19;MBQ=28,5,0;MFRL=341,371,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.093e+00,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5488,54,0:3.809e-04,1.808e-04:5542:2671,28,0:2817,26,0 MT 5326 . C . . END=5327 GT:DP:MIN_DP:TLOD 0/0:5637:5596:-3.739e+00 -MT 5328 . C A, . base_quality;t_lod CONTQ=93;DP=5756;ECNT=19;MBQ=29,12,0;MFRL=341,600,0;MMQ=60,60,0;MPOS=63,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.738e-04;SAPP=1.492e-04,5.691e-05,1.000;TLOD=-3.456e+00,-3.459e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5753,1,0:1.750e-04,1.737e-04:5754:2791,0,0:2962,1,0:0|1:5328_C_A:5328 +MT 5328 . C A, . base_quality;t_lod CONTQ=93;DP=5756;ECNT=19;MBQ=29,12,0;MFRL=341,600,0;MMQ=60,60,0;MPOS=63,0;POPAF=7.30,7.30;TLOD=-3.456e+00,-3.459e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5753,1,0:1.750e-04,1.737e-04:5754:2791,0,0:2962,1,0:0|1:5328_C_A:5328 MT 5329 . T . . END=5329 GT:DP:MIN_DP:TLOD 0/0:5744:5744:-3.745e+00 -MT 5330 . C A, . base_quality;t_lod CONTQ=93;DP=5836;ECNT=19;MBQ=29,11,0;MFRL=341,460,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.042e-03;SAPP=9.660e-04,7.777e-05,0.999;TLOD=-3.459e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5750,6,0:1.737e-04,1.729e-04:5756:2787,2,0:2963,4,0 +MT 5330 . C A, . base_quality;t_lod CONTQ=93;DP=5836;ECNT=19;MBQ=29,11,0;MFRL=341,460,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.459e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5750,6,0:1.737e-04,1.729e-04:5756:2787,2,0:2963,4,0 MT 5331 . C . . END=5334 GT:DP:MIN_DP:TLOD 0/0:5887:5831:-3.746e+00 -MT 5335 . A C, . base_quality;t_lod CONTQ=93;DP=6033;ECNT=19;MBQ=28,7,0;MFRL=341,375,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.078e-03;SAPP=6.133e-10,1.000,9.785e-06;TLOD=-2.969e+00,-3.472e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5894,48,0:3.975e-04,1.687e-04:5942:2839,27,0:3055,21,0 +MT 5335 . A C, . base_quality;t_lod CONTQ=93;DP=6033;ECNT=19;MBQ=28,7,0;MFRL=341,375,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-2.969e+00,-3.472e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5894,48,0:3.975e-04,1.687e-04:5942:2839,27,0:3055,21,0 MT 5336 . C . . END=5336 GT:DP:MIN_DP:TLOD 0/0:6033:6033:-3.773e+00 -MT 5337 . C T, . base_quality;t_lod CONTQ=93;DP=6114;ECNT=19;MBQ=29,13,0;MFRL=342,600,0;MMQ=60,60,0;MPOS=72,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.659e-04;SAPP=1.396e-04,5.472e-05,1.000;TLOD=-3.479e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6028,1,0:1.660e-04,1.648e-04:6029:2909,0,0:3119,1,0:0|1:5328_C_A:5328 +MT 5337 . C T, . base_quality;t_lod CONTQ=93;DP=6114;ECNT=19;MBQ=29,13,0;MFRL=342,600,0;MMQ=60,60,0;MPOS=72,0;POPAF=7.30,7.30;TLOD=-3.479e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6028,1,0:1.660e-04,1.648e-04:6029:2909,0,0:3119,1,0:0|1:5328_C_A:5328 MT 5338 . T . . END=5340 GT:DP:MIN_DP:TLOD 0/0:6168:6122:-3.781e+00 -MT 5341 . A C, . base_quality;t_lod CONTQ=93;DP=6274;ECNT=19;MBQ=29,8,0;MFRL=342,384,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.173e-03;SAPP=1.156e-04,5.544e-03,0.994;TLOD=-3.473e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6154,32,0:1.685e-04,1.616e-04:6186:2960,15,0:3194,17,0 +MT 5341 . A C, . base_quality;t_lod CONTQ=93;DP=6274;ECNT=19;MBQ=29,8,0;MFRL=342,384,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.473e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6154,32,0:1.685e-04,1.616e-04:6186:2960,15,0:3194,17,0 MT 5342 . C . . END=5342 GT:DP:MIN_DP:TLOD 0/0:6278:6278:-3.750e+00 -MT 5343 . T A,C, . base_quality;t_lod CONTQ=93;DP=6348;ECNT=19;MBQ=29,8,10,0;MFRL=342,454,457,0;MMQ=60,60,60,0;MPOS=25,37,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,9.585e-04;SAPP=1.507e-04,1.869e-04,1.000;TLOD=-3.321e+00,-3.162e+00,-3.321e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6254,1,6,0:1.592e-04,2.229e-04,1.591e-04:6261:3008,0,4,0:3246,1,2,0 +MT 5343 . T A,C, . base_quality;t_lod CONTQ=93;DP=6348;ECNT=19;MBQ=29,8,10,0;MFRL=342,454,457,0;MMQ=60,60,60,0;MPOS=25,37,0;POPAF=7.30,7.30,7.30;TLOD=-3.321e+00,-3.162e+00,-3.321e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6254,1,6,0:1.592e-04,2.229e-04,1.591e-04:6261:3008,0,4,0:3246,1,2,0 MT 5344 . T . . END=5347 GT:DP:MIN_DP:TLOD 0/0:6431:6362:-3.802e+00 -MT 5348 . C A, . base_quality;t_lod CONTQ=93;DP=6546;ECNT=19;MBQ=29,13,0;MFRL=342,368,0;MMQ=60,60,0;MPOS=66,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.097e-04;SAPP=4.665e-05,4.205e-04,1.000;TLOD=-3.511e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6455,2,0:1.543e-04,1.541e-04:6457:3099,2,0:3356,0,0 +MT 5348 . C A, . base_quality;t_lod CONTQ=93;DP=6546;ECNT=19;MBQ=29,13,0;MFRL=342,368,0;MMQ=60,60,0;MPOS=66,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6455,2,0:1.543e-04,1.541e-04:6457:3099,2,0:3356,0,0 MT 5349 . C . . END=5352 GT:DP:MIN_DP:TLOD 0/0:6599:6572:-3.819e+00 -MT 5353 . G A,T, . base_quality;t_lod CONTQ=93;DP=6741;ECNT=19;MBQ=25,14,15,0;MFRL=343,303,364,0;MMQ=60,60,60,0;MPOS=25,39,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.517e-03;SAPP=5.844e-04,9.545e-05,0.999;TLOD=-3.343e+00,-3.174e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6581,3,10,0:1.513e-04,2.204e-04,1.509e-04:6594:3141,1,5,0:3440,2,5,0 -MT 5354 . C A,T, . base_quality;t_lod CONTQ=93;DP=6783;ECNT=19;MBQ=29,12,18,0;MFRL=343,371,379,0;MMQ=60,60,60,0;MPOS=44,39,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.030e-04;SAPP=9.820e-05,1.124e-04,1.000;TLOD=-3.343e+00,-3.333e+00,-3.347e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6598,6,2,0:1.512e-04,1.549e-04,1.498e-04:6606:3148,5,1,0:3450,1,1,0 +MT 5353 . G A,T, . base_quality;t_lod CONTQ=93;DP=6741;ECNT=19;MBQ=25,14,15,0;MFRL=343,303,364,0;MMQ=60,60,60,0;MPOS=25,39,0;POPAF=7.30,7.30,7.30;TLOD=-3.343e+00,-3.174e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6581,3,10,0:1.513e-04,2.204e-04,1.509e-04:6594:3141,1,5,0:3440,2,5,0 +MT 5354 . C A,T, . base_quality;t_lod CONTQ=93;DP=6783;ECNT=19;MBQ=29,12,18,0;MFRL=343,371,379,0;MMQ=60,60,60,0;MPOS=44,39,0;POPAF=7.30,7.30,7.30;TLOD=-3.343e+00,-3.333e+00,-3.347e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6598,6,2,0:1.512e-04,1.549e-04,1.498e-04:6606:3148,5,1,0:3450,1,1,0 MT 5355 . C . . END=5356 GT:DP:MIN_DP:TLOD 0/0:7277:7247:-3.739e+00 MT 5357 . A . . END=5357 GT:DP:MIN_DP:TLOD 0/0:7254:7254:-3.459e+00 MT 5358 . A . . END=5358 GT:DP:MIN_DP:TLOD 0/0:7234:7234:-1.930e+00 @@ -2317,49 +2315,49 @@ MT 5410 . A . . END=5410 GT:DP:MIN_DP:TLOD 0/0:7114:7114:-2.870e+00 MT 5411 . A . . END=5412 GT:DP:MIN_DP:TLOD 0/0:7086:7065:-3.749e+00 MT 5413 . G . . END=5413 GT:DP:MIN_DP:TLOD 0/0:7052:7052:-2.881e+00 MT 5414 . A . . END=5422 GT:DP:MIN_DP:TLOD 0/0:7116:7022:-3.810e+00 -MT 5423 . A C, . base_quality;t_lod CONTQ=93;DP=6762;ECNT=24;MBQ=29,8,0;MFRL=350,307,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.670e-03;SAPP=1.680e-04,2.098e-04,1.000;TLOD=-3.512e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,11,0:1.539e-04,1.504e-04:6586:3267,8,0:3308,3,0 +MT 5423 . A C, . base_quality;t_lod CONTQ=93;DP=6762;ECNT=24;MBQ=29,8,0;MFRL=350,307,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;TLOD=-3.512e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,11,0:1.539e-04,1.504e-04:6586:3267,8,0:3308,3,0 MT 5424 . C . . END=5427 GT:DP:MIN_DP:TLOD 0/0:6605:6595:-3.811e+00 -MT 5428 . C A, . base_quality;t_lod CONTQ=93;DP=6771;ECNT=24;MBQ=29,10,0;MFRL=350,299,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.578e-04;SAPP=1.972e-04,9.678e-05,1.000;TLOD=-3.521e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6593,5,0:1.506e-04,1.501e-04:6598:3270,3,0:3323,2,0 +MT 5428 . C A, . base_quality;t_lod CONTQ=93;DP=6771;ECNT=24;MBQ=29,10,0;MFRL=350,299,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.521e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6593,5,0:1.506e-04,1.501e-04:6598:3270,3,0:3323,2,0 MT 5429 . A . . END=5429 GT:DP:MIN_DP:TLOD 0/0:6624:6624:-3.585e+00 -MT 5430 . A C, . base_quality;t_lod CONTQ=93;DP=6768;ECNT=24;MBQ=29,8,0;MFRL=350,367,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.698e-03;SAPP=1.043e-04,7.783e-03,0.992;TLOD=-3.484e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6568,31,0:1.643e-04,1.509e-04:6599:3252,21,0:3316,10,0 -MT 5431 . A C, . base_quality;t_lod CONTQ=93;DP=6762;ECNT=24;MBQ=29,8,0;MFRL=350,377,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.213e-03;SAPP=2.084e-09,1.000,3.333e-05;TLOD=-3.477e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6521,54,0:1.673e-04,1.517e-04:6575:3218,41,0:3303,13,0 +MT 5430 . A C, . base_quality;t_lod CONTQ=93;DP=6768;ECNT=24;MBQ=29,8,0;MFRL=350,367,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.484e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6568,31,0:1.643e-04,1.509e-04:6599:3252,21,0:3316,10,0 +MT 5431 . A C, . base_quality;t_lod CONTQ=93;DP=6762;ECNT=24;MBQ=29,8,0;MFRL=350,377,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.477e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6521,54,0:1.673e-04,1.517e-04:6575:3218,41,0:3303,13,0 MT 5432 . A . . END=5433 GT:DP:MIN_DP:TLOD 0/0:6573:6542:-3.822e+00 -MT 5434 . C A, . base_quality;t_lod CONTQ=93;DP=6767;ECNT=24;MBQ=29,12,0;MFRL=350,530,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.209e-03;SAPP=3.700e-03,5.844e-05,0.996;TLOD=-3.520e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6609,8,0:1.509e-04,1.501e-04:6617:3264,3,0:3345,5,0 -MT 5435 . C A, . base_quality;t_lod CONTQ=93;DP=6763;ECNT=24;MBQ=28,14,0;MFRL=351,499,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.090e-04;SAPP=6.536e-03,4.661e-05,0.993;TLOD=-3.441e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6595,6,0:1.799e-04,1.503e-04:6601:3262,3,0:3333,3,0 -MT 5436 . A C, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=24;MBQ=28,5,0;MFRL=350,365,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.012;SAPP=6.359e-19,1.000,1.178e-14;TLOD=-3.354e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6476,81,0:2.313e-04,1.522e-04:6557:3187,48,0:3289,33,0 +MT 5434 . C A, . base_quality;t_lod CONTQ=93;DP=6767;ECNT=24;MBQ=29,12,0;MFRL=350,530,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6609,8,0:1.509e-04,1.501e-04:6617:3264,3,0:3345,5,0 +MT 5435 . C A, . base_quality;t_lod CONTQ=93;DP=6763;ECNT=24;MBQ=28,14,0;MFRL=351,499,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.441e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6595,6,0:1.799e-04,1.503e-04:6601:3262,3,0:3333,3,0 +MT 5436 . A C, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=24;MBQ=28,5,0;MFRL=350,365,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.354e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6476,81,0:2.313e-04,1.522e-04:6557:3187,48,0:3289,33,0 MT 5437 . C . . END=5438 GT:DP:MIN_DP:TLOD 0/0:6601:6587:-3.809e+00 -MT 5439 . C A, . t_lod CONTQ=93;DP=6771;ECNT=24;MBQ=29,26,0;MFRL=351,401,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.365e-03;SAPP=6.125e-03,5.693e-05,0.994;TLOD=-2.766e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6585,9,0:5.290e-04,1.502e-04:6594:3258,3,0:3327,6,0 -MT 5440 . C A, . base_quality;t_lod CONTQ=93;DP=6768;ECNT=24;MBQ=29,11,0;MFRL=350,496,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.985e-04;SAPP=1.415e-03,4.668e-05,0.999;TLOD=-2.790e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6679,4,0:2.797e-04,1.489e-04:6683:3285,2,0:3394,2,0:0|1:5440_C_A:5440 +MT 5439 . C A, . t_lod CONTQ=93;DP=6771;ECNT=24;MBQ=29,26,0;MFRL=351,401,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-2.766e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6585,9,0:5.290e-04,1.502e-04:6594:3258,3,0:3327,6,0 +MT 5440 . C A, . base_quality;t_lod CONTQ=93;DP=6768;ECNT=24;MBQ=29,11,0;MFRL=350,496,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-2.790e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6679,4,0:2.797e-04,1.489e-04:6683:3285,2,0:3394,2,0:0|1:5440_C_A:5440 MT 5441 . A . . END=5442 GT:DP:MIN_DP:TLOD 0/0:6589:6577:-3.796e+00 -MT 5443 . T A, . base_quality;t_lod CONTQ=93;DP=6774;ECNT=24;MBQ=28,12,0;MFRL=350,448,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.222e-03;SAPP=1.914e-04,1.884e-04,1.000;TLOD=-3.516e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6540,8,0:1.523e-04,1.514e-04:6548:3212,3,0:3328,5,0 +MT 5443 . T A, . base_quality;t_lod CONTQ=93;DP=6774;ECNT=24;MBQ=28,12,0;MFRL=350,448,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6540,8,0:1.523e-04,1.514e-04:6548:3212,3,0:3328,5,0 MT 5444 . C . . END=5448 GT:DP:MIN_DP:TLOD 0/0:6631:6602:-3.799e+00 MT 5449 . C . . END=5449 GT:DP:MIN_DP:TLOD 0/0:6642:6642:-3.245e+00 MT 5450 . C . . END=5452 GT:DP:MIN_DP:TLOD 0/0:6622:6599:-3.806e+00 -MT 5453 . A C, . base_quality;t_lod CONTQ=93;DP=6825;ECNT=24;MBQ=28,5,0;MFRL=351,364,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.789e-03;SAPP=9.974e-05,0.048,0.952;TLOD=-3.333e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6583,45,0:2.330e-04,1.503e-04:6628:3224,24,0:3359,21,0 +MT 5453 . A C, . base_quality;t_lod CONTQ=93;DP=6825;ECNT=24;MBQ=28,5,0;MFRL=351,364,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.333e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6583,45,0:2.330e-04,1.503e-04:6628:3224,24,0:3359,21,0 MT 5454 . C . . END=5456 GT:DP:MIN_DP:TLOD 0/0:6646:6630:-3.816e+00 -MT 5457 . A C, . base_quality;t_lod CONTQ=93;DP=6866;ECNT=24;MBQ=29,9,0;MFRL=351,439,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.405e-03;SAPP=2.207e-04,5.561e-04,0.999;TLOD=-3.478e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6625,36,0:1.669e-04,1.491e-04:6661:3241,21,0:3384,15,0 +MT 5457 . A C, . base_quality;t_lod CONTQ=93;DP=6866;ECNT=24;MBQ=29,9,0;MFRL=351,439,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6625,36,0:1.669e-04,1.491e-04:6661:3241,21,0:3384,15,0 MT 5458 . T . . END=5459 GT:DP:MIN_DP:TLOD 0/0:6643:6624:-3.783e+00 -MT 5460 . G A,C, . PASS CONTQ=93;DP=6832;ECNT=24;MBQ=24,29,7,0;MFRL=305,351,370,0;MMQ=60,60,60,0;MPOS=36,11,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.044,0.017,0.939;TLOD=20738.61,-3.175e+00,-3.347e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:18,6570,56,0:0.999,2.298e-04,1.499e-04:6644:12,3204,29,0:6,3366,27,0 +MT 5460 . G A,C, . PASS CONTQ=93;DP=6832;ECNT=24;MBQ=24,29,7,0;MFRL=305,351,370,0;MMQ=60,60,60,0;MPOS=36,11,0;POPAF=7.30,7.30,7.30;TLOD=20738.61,-3.175e+00,-3.347e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:18,6570,56,0:0.999,2.298e-04,1.499e-04:6644:12,3204,29,0:6,3366,27,0 MT 5461 . C . . END=5462 GT:DP:MIN_DP:TLOD 0/0:6667:6655:-3.816e+00 -MT 5463 . C A, . base_quality;t_lod CONTQ=93;DP=6837;ECNT=24;MBQ=29,12,0;MFRL=351,427,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.965e-04;SAPP=1.042e-04,1.022e-04,1.000;TLOD=-2.800e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6744,2,0:2.763e-04,1.474e-04:6746:3304,2,0:3440,0,0:0|1:5440_C_A:5440 +MT 5463 . C A, . base_quality;t_lod CONTQ=93;DP=6837;ECNT=24;MBQ=29,12,0;MFRL=351,427,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-2.800e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6744,2,0:2.763e-04,1.474e-04:6746:3304,2,0:3440,0,0:0|1:5440_C_A:5440 MT 5464 . T . . END=5465 GT:DP:MIN_DP:TLOD 0/0:6616:6614:-3.689e+00 -MT 5466 . A C,T, . base_quality;t_lod CONTQ=93;DP=6802;ECNT=24;MBQ=29,4,0,0;MFRL=350,439,0,0;MMQ=60,60,0,0;MPOS=3,0,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.00,1.192e-03;SAPP=4.607e-05,0.025,0.975;TLOD=-3.315e+00,-3.352e+00,-3.352e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6704,8,0,0:1.614e-04,1.482e-04,1.482e-04:6712:3290,3,0,0:3414,5,0,0 +MT 5466 . A C,T, . base_quality;t_lod CONTQ=93;DP=6802;ECNT=24;MBQ=29,4,0,0;MFRL=350,439,0,0;MMQ=60,60,0,0;MPOS=3,0,0;POPAF=7.30,7.30,7.30;TLOD=-3.315e+00,-3.352e+00,-3.352e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6704,8,0,0:1.614e-04,1.482e-04,1.482e-04:6712:3290,3,0,0:3414,5,0,0 MT 5467 . C . . END=5467 GT:DP:MIN_DP:TLOD 0/0:6596:6596:-3.804e+00 MT 5468 . C . . END=5468 GT:DP:MIN_DP:TLOD 0/0:6634:6634:-3.479e+00 -MT 5469 . A C, . base_quality;t_lod CONTQ=93;DP=6788;ECNT=24;MBQ=29,7,0;MFRL=350,384,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.362e-03;SAPP=1.970e-04,1.518e-03,0.998;TLOD=-3.456e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6560,42,0:1.762e-04,1.506e-04:6602:3216,21,0:3344,21,0 +MT 5469 . A C, . base_quality;t_lod CONTQ=93;DP=6788;ECNT=24;MBQ=29,7,0;MFRL=350,384,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.456e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6560,42,0:1.762e-04,1.506e-04:6602:3216,21,0:3344,21,0 MT 5470 . C . . END=5481 GT:DP:MIN_DP:TLOD 0/0:6609:6509:-3.818e+00 -MT 5482 . C A, . base_quality;t_lod CONTQ=93;DP=6759;ECNT=24;MBQ=29,2,0;MFRL=350,385,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.497e-04;SAPP=7.662e-05,1.837e-04,1.000;TLOD=-3.525e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6668,3,0:1.494e-04,1.491e-04:6671:3260,0,0:3408,3,0 +MT 5482 . C A, . base_quality;t_lod CONTQ=93;DP=6759;ECNT=24;MBQ=29,2,0;MFRL=350,385,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=-3.525e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6668,3,0:1.494e-04,1.491e-04:6671:3260,0,0:3408,3,0 MT 5483 . T . . END=5483 GT:DP:MIN_DP:TLOD 0/0:6591:6591:-3.813e+00 -MT 5484 . A C, . base_quality;t_lod CONTQ=93;DP=6744;ECNT=24;MBQ=29,8,0;MFRL=350,423,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.107e-03;SAPP=2.129e-04,6.420e-04,0.999;TLOD=-3.464e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6547,27,0:1.722e-04,1.513e-04:6574:3208,9,0:3339,18,0 -MT 5485 . T A, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=24;MBQ=28,11,0;MFRL=350,396,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.070e-03;SAPP=1.317e-04,2.602e-04,1.000;TLOD=-3.516e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6533,7,0:1.523e-04,1.515e-04:6540:3200,2,0:3333,5,0 +MT 5484 . A C, . base_quality;t_lod CONTQ=93;DP=6744;ECNT=24;MBQ=29,8,0;MFRL=350,423,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.464e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6547,27,0:1.722e-04,1.513e-04:6574:3208,9,0:3339,18,0 +MT 5485 . T A, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=24;MBQ=28,11,0;MFRL=350,396,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6533,7,0:1.523e-04,1.515e-04:6540:3200,2,0:3333,5,0 MT 5486 . C . . END=5487 GT:DP:MIN_DP:TLOD 0/0:6589:6583:-3.812e+00 -MT 5488 . C A, . base_quality;t_lod CONTQ=93;DP=6746;ECNT=24;MBQ=29,13,0;MFRL=350,364,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.138e-04;SAPP=2.900e-04,9.973e-05,1.000;TLOD=-3.406e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6560,6,0:1.962e-04,1.507e-04:6566:3218,4,0:3342,2,0 -MT 5489 . C A, . t_lod CONTQ=93;DP=6747;ECNT=24;MBQ=29,25,0;MFRL=350,299,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.615e-04;SAPP=9.763e-05,1.980e-04,1.000;TLOD=-3.313e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6561,5,0:2.411e-04,1.507e-04:6566:3221,3,0:3340,2,0 +MT 5488 . C A, . base_quality;t_lod CONTQ=93;DP=6746;ECNT=24;MBQ=29,13,0;MFRL=350,364,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.406e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6560,6,0:1.962e-04,1.507e-04:6566:3218,4,0:3342,2,0 +MT 5489 . C A, . t_lod CONTQ=93;DP=6747;ECNT=24;MBQ=29,25,0;MFRL=350,299,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.313e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6561,5,0:2.411e-04,1.507e-04:6566:3221,3,0:3340,2,0 MT 5490 . C . . END=5490 GT:DP:MIN_DP:TLOD 0/0:6662:6662:-3.813e+00 -MT 5491 . C A, . base_quality;t_lod CONTQ=93;DP=6744;ECNT=24;MBQ=29,14,0;MFRL=350,333,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.219e-03;SAPP=1.786e-04,2.019e-04,1.000;TLOD=-3.449e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6557,8,0:1.782e-04,1.508e-04:6565:3232,1,0:3325,7,0 +MT 5491 . C A, . base_quality;t_lod CONTQ=93;DP=6744;ECNT=24;MBQ=29,14,0;MFRL=350,333,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.449e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6557,8,0:1.782e-04,1.508e-04:6565:3232,1,0:3325,7,0 MT 5492 . T . . END=5493 GT:DP:MIN_DP:TLOD 0/0:6607:6600:-3.814e+00 -MT 5494 . T G, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=24;MBQ=29,6,0;MFRL=350,339,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.677e-03;SAPP=1.032e-04,5.011e-04,0.999;TLOD=-3.322e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6549,11,0:2.316e-04,1.510e-04:6560:3220,1,0:3329,10,0 -MT 5495 . T G, . base_quality;t_lod CONTQ=93;DP=6751;ECNT=24;MBQ=29,17,0;MFRL=349,502,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.218e-03;SAPP=1.741e-04,2.075e-04,1.000;TLOD=-3.411e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6561,8,0:1.949e-04,1.508e-04:6569:3214,3,0:3347,5,0 +MT 5494 . T G, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=24;MBQ=29,6,0;MFRL=350,339,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.322e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6549,11,0:2.316e-04,1.510e-04:6560:3220,1,0:3329,10,0 +MT 5495 . T G, . base_quality;t_lod CONTQ=93;DP=6751;ECNT=24;MBQ=29,17,0;MFRL=349,502,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.411e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6561,8,0:1.949e-04,1.508e-04:6569:3214,3,0:3347,5,0 MT 5496 . A . . END=5504 GT:DP:MIN_DP:TLOD 0/0:7095:6927:-3.829e+00 MT 5505 . A . . END=5505 GT:DP:MIN_DP:TLOD 0/0:6925:6925:-3.194e+00 MT 5506 . T . . END=5510 GT:DP:MIN_DP:TLOD 0/0:6801:6695:-3.733e+00 @@ -2821,7 +2819,7 @@ MT 6822 . T . . END=6822 GT:DP:MIN_DP:TLOD 0/0:2034:2034:-2.669e+00 MT 6823 . C . . END=6829 GT:DP:MIN_DP:TLOD 0/0:2070:2043:-3.308e+00 MT 6830 . C . . END=6830 GT:DP:MIN_DP:TLOD 0/0:2096:2096:-2.601e+00 MT 6831 . A . . END=6833 GT:DP:MIN_DP:TLOD 0/0:2098:2095:-3.313e+00 -MT 6834 . A C, . base_quality;t_lod CONTQ=93;DP=2219;ECNT=8;MBQ=29,8,0;MFRL=343,376,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.010;SAPP=1.432e-06,0.991,9.052e-03;TLOD=-2.863e+00,-3.020e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2011,21,0:6.869e-04,4.786e-04:2032:1031,12,0:980,9,0 +MT 6834 . A C, . base_quality;t_lod CONTQ=93;DP=2219;ECNT=8;MBQ=29,8,0;MFRL=343,376,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-2.863e+00,-3.020e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2011,21,0:6.869e-04,4.786e-04:2032:1031,12,0:980,9,0 MT 6835 . T . . END=6839 GT:DP:MIN_DP:TLOD 0/0:2131:2033:-3.348e+00 MT 6840 . G . . END=6840 GT:DP:MIN_DP:TLOD 0/0:2266:2266:-2.868e+00 MT 6841 . C . . END=6860 GT:DP:MIN_DP:TLOD 0/0:2724:2323:-3.491e+00 @@ -2836,24 +2834,24 @@ MT 6875 . C . . END=6875 GT:DP:MIN_DP:TLOD 0/0:3858:3858:-2.774e+00 MT 6876 . G . . END=6876 GT:DP:MIN_DP:TLOD 0/0:3904:3904:-3.496e+00 MT 6877 . C . . END=6880 GT:DP:MIN_DP:TLOD 0/0:4053:3981:-3.605e+00 MT 6881 . A . . END=6881 GT:DP:MIN_DP:TLOD 0/0:4143:4143:-3.439e+00 -MT 6882 . C A, . base_quality;t_lod CONTQ=93;DP=4292;ECNT=8;MBQ=29,18,0;MFRL=347,401,0;MMQ=60,59,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.749e-04;SAPP=6.969e-05,6.370e-04,0.999;TLOD=-3.298e+00,-3.326e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4209,2,0:2.517e-04,2.359e-04:4211:2185,0,0:2024,2,0 +MT 6882 . C A, . base_quality;t_lod CONTQ=93;DP=4292;ECNT=8;MBQ=29,18,0;MFRL=347,401,0;MMQ=60,59,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.298e+00,-3.326e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4209,2,0:2.517e-04,2.359e-04:4211:2185,0,0:2024,2,0 MT 6883 . T . . END=6884 GT:DP:MIN_DP:TLOD 0/0:4248:4217:-3.629e+00 -MT 6885 . C A, . base_quality;t_lod CONTQ=93;DP=4417;ECNT=8;MBQ=29,10,0;MFRL=346,368,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.932e-04;SAPP=6.779e-05,1.361e-03,0.999;TLOD=-3.337e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4325,3,0:2.301e-04,2.293e-04:4328:2251,1,0:2074,2,0 +MT 6885 . C A, . base_quality;t_lod CONTQ=93;DP=4417;ECNT=8;MBQ=29,10,0;MFRL=346,368,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.337e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4325,3,0:2.301e-04,2.293e-04:4328:2251,1,0:2074,2,0 MT 6886 . A . . END=6888 GT:DP:MIN_DP:TLOD 0/0:4397:4387:-3.634e+00 MT 6889 . G . . END=6889 GT:DP:MIN_DP:TLOD 0/0:4501:4501:-3.436e+00 MT 6890 . A . . END=6890 GT:DP:MIN_DP:TLOD 0/0:4569:4569:-3.640e+00 MT 6891 . A . . END=6891 GT:DP:MIN_DP:TLOD 0/0:4611:4611:-3.497e+00 -MT 6892 . G T, . base_quality;t_lod CONTQ=93;DP=4734;ECNT=8;MBQ=29,14,0;MFRL=348,373,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.293e-03;SAPP=8.274e-05,1.953e-03,0.998;TLOD=-3.234e+00,-3.368e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4634,6,0:2.820e-04,2.141e-04:4640:2408,4,0:2226,2,0 +MT 6892 . G T, . base_quality;t_lod CONTQ=93;DP=4734;ECNT=8;MBQ=29,14,0;MFRL=348,373,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;TLOD=-3.234e+00,-3.368e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4634,6,0:2.820e-04,2.141e-04:4640:2408,4,0:2226,2,0 MT 6893 . C . . END=6893 GT:DP:MIN_DP:TLOD 0/0:4703:4703:-3.653e+00 -MT 6894 . A C, . base_quality;t_lod CONTQ=93;DP=4820;ECNT=8;MBQ=29,9,0;MFRL=349,330,0;MMQ=60,59,0;MPOS=63,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.479e-03;SAPP=1.592e-03,9.391e-05,0.998;TLOD=-2.996e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4725,7,0:4.304e-04,2.099e-04:4732:2453,3,0:2272,4,0 +MT 6894 . A C, . base_quality;t_lod CONTQ=93;DP=4820;ECNT=8;MBQ=29,9,0;MFRL=349,330,0;MMQ=60,59,0;MPOS=63,0;POPAF=7.30,7.30;TLOD=-2.996e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4725,7,0:4.304e-04,2.099e-04:4732:2453,3,0:2272,4,0 MT 6895 . A . . END=6896 GT:DP:MIN_DP:TLOD 0/0:4821:4801:-3.677e+00 -MT 6897 . A C, . base_quality;t_lod CONTQ=93;DP=4947;ECNT=8;MBQ=30,8,0;MFRL=348,325,0;MMQ=60,58,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.851e-03;SAPP=4.712e-04,1.544e-04,0.999;TLOD=-3.212e+00,-3.388e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4854,9,0:2.900e-04,2.046e-04:4863:2518,6,0:2336,3,0 +MT 6897 . A C, . base_quality;t_lod CONTQ=93;DP=4947;ECNT=8;MBQ=30,8,0;MFRL=348,325,0;MMQ=60,58,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.212e+00,-3.388e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4854,9,0:2.900e-04,2.046e-04:4863:2518,6,0:2336,3,0 MT 6898 . T . . END=6899 GT:DP:MIN_DP:TLOD 0/0:4953:4933:-3.685e+00 -MT 6900 . A C, . base_quality;t_lod CONTQ=93;DP=5081;ECNT=8;MBQ=29,14,0;MFRL=348,376,0;MMQ=60,59,0;MPOS=72,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.968e-04;SAPP=1.612e-04,6.729e-05,1.000;TLOD=-3.405e+00,-3.405e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5080,1,0:1.969e-04,1.967e-04:5081:2621,1,0:2459,0,0 +MT 6900 . A C, . base_quality;t_lod CONTQ=93;DP=5081;ECNT=8;MBQ=29,14,0;MFRL=348,376,0;MMQ=60,59,0;MPOS=72,0;POPAF=7.30,7.30;TLOD=-3.405e+00,-3.405e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5080,1,0:1.969e-04,1.967e-04:5081:2621,1,0:2459,0,0 MT 6901 . A . . END=6902 GT:DP:MIN_DP:TLOD 0/0:5084:5062:-3.692e+00 MT 6903 . T . . END=6903 GT:DP:MIN_DP:TLOD 0/0:5153:5153:-3.471e+00 MT 6904 . G . . END=6904 GT:DP:MIN_DP:TLOD 0/0:5205:5205:-3.703e+00 -MT 6905 . A C, . base_quality;t_lod CONTQ=93;DP=5300;ECNT=8;MBQ=29,6,0;MFRL=348,376,0;MMQ=60,59,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.883e-03;SAPP=4.472e-04,2.154e-04,0.999;TLOD=-3.256e+00,-3.417e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5188,15,0:2.646e-04,1.912e-04:5203:2674,10,0:2514,5,0 +MT 6905 . A C, . base_quality;t_lod CONTQ=93;DP=5300;ECNT=8;MBQ=29,6,0;MFRL=348,376,0;MMQ=60,59,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.256e+00,-3.417e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5188,15,0:2.646e-04,1.912e-04:5203:2674,10,0:2514,5,0 MT 6906 . T . . END=6910 GT:DP:MIN_DP:TLOD 0/0:5815:5704:-3.752e+00 MT 6911 . T . . END=6911 GT:DP:MIN_DP:TLOD 0/0:5966:5966:-3.200e+00 MT 6912 . G . . END=6918 GT:DP:MIN_DP:TLOD 0/0:6108:5989:-3.760e+00 @@ -3440,41 +3438,41 @@ MT 8470 . A . . END=8470 GT:DP:MIN_DP:TLOD 0/0:7001:7001:3.24 MT 8471 . C . . END=8472 GT:DP:MIN_DP:TLOD 0/0:7143:7100:-3.777e+00 MT 8473 . T . . END=8473 GT:DP:MIN_DP:TLOD 0/0:7091:7091:-1.443e+00 MT 8474 . C . . END=8474 GT:DP:MIN_DP:TLOD 0/0:7204:7204:-3.841e+00 -MT 8475 . C A, . base_quality;t_lod CONTQ=93;DP=6591;ECNT=22;MBQ=29,13,0;MFRL=332,336,0;MMQ=60,60,0;MPOS=57,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.312e-04;SAPP=9.900e-05,3.140e-04,1.000;TLOD=-3.394e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6437,6,0:2.010e-04,1.539e-04:6443:3236,2,0:3201,4,0 -MT 8476 . C A, . base_quality;t_lod CONTQ=93;DP=6590;ECNT=22;MBQ=29,12,0;MFRL=332,342,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.241e-03;SAPP=1.204e-04,3.510e-04,1.000;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6439,8,0:1.549e-04,1.540e-04:6447:3234,5,0:3205,3,0 -MT 8477 . T C, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=22;MBQ=29,2,0;MFRL=332,308,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.057e-03;SAPP=1.211e-03,1.589e-04,0.999;TLOD=-3.501e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6383,26,0:1.579e-04,1.550e-04:6409:3200,13,0:3183,13,0 +MT 8475 . C A, . base_quality;t_lod CONTQ=93;DP=6591;ECNT=22;MBQ=29,13,0;MFRL=332,336,0;MMQ=60,60,0;MPOS=57,0;POPAF=7.30,7.30;TLOD=-3.394e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6437,6,0:2.010e-04,1.539e-04:6443:3236,2,0:3201,4,0 +MT 8476 . C A, . base_quality;t_lod CONTQ=93;DP=6590;ECNT=22;MBQ=29,12,0;MFRL=332,342,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6439,8,0:1.549e-04,1.540e-04:6447:3234,5,0:3205,3,0 +MT 8477 . T C, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=22;MBQ=29,2,0;MFRL=332,308,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.501e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6383,26,0:1.579e-04,1.550e-04:6409:3200,13,0:3183,13,0 MT 8478 . C . . END=8478 GT:DP:MIN_DP:TLOD 0/0:6470:6470:-3.802e+00 -MT 8479 . A C, . base_quality;t_lod CONTQ=93;DP=6603;ECNT=22;MBQ=29,5,0;MFRL=332,338,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.369e-03;SAPP=5.039e-04,3.666e-04,0.999;TLOD=-3.484e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6396,41,0:1.645e-04,1.547e-04:6437:3206,24,0:3190,17,0 +MT 8479 . A C, . base_quality;t_lod CONTQ=93;DP=6603;ECNT=22;MBQ=29,5,0;MFRL=332,338,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.484e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6396,41,0:1.645e-04,1.547e-04:6437:3206,24,0:3190,17,0 MT 8480 . C . . END=8489 GT:DP:MIN_DP:TLOD 0/0:6477:6423:-3.810e+00 -MT 8490 . T A, . base_quality;t_lod CONTQ=93;DP=6654;ECNT=22;MBQ=29,4,0;MFRL=331,331,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.186e-04;SAPP=2.955e-04,7.039e-05,1.000;TLOD=-3.513e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,4,0:1.536e-04,1.531e-04:6466:3212,3,0:3250,1,0 +MT 8490 . T A, . base_quality;t_lod CONTQ=93;DP=6654;ECNT=22;MBQ=29,4,0;MFRL=331,331,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-3.513e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,4,0:1.536e-04,1.531e-04:6466:3212,3,0:3250,1,0 MT 8491 . A . . END=8495 GT:DP:MIN_DP:TLOD 0/0:6530:6527:-3.810e+00 -MT 8496 . T A, . base_quality;t_lod CONTQ=93;DP=6678;ECNT=22;MBQ=29,2,0;MFRL=330,380,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.240e-03;SAPP=0.382,3.705e-05,0.618;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6461,21,0:1.552e-04,1.529e-04:6482:3215,6,0:3246,15,0 +MT 8496 . T A, . base_quality;t_lod CONTQ=93;DP=6678;ECNT=22;MBQ=29,2,0;MFRL=330,380,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6461,21,0:1.552e-04,1.529e-04:6482:3215,6,0:3246,15,0 MT 8497 . A . . END=8497 GT:DP:MIN_DP:TLOD 0/0:6519:6519:-3.812e+00 -MT 8498 . A C, . base_quality;t_lod CONTQ=93;DP=6684;ECNT=22;MBQ=29,18,0;MFRL=330,421,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.034e-04;SAPP=4.676e-05,3.890e-04,1.000;TLOD=-3.506e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,2,0:1.558e-04,1.508e-04:6592:3276,1,0:3314,1,0 -MT 8499 . A C, . base_quality;t_lod CONTQ=93;DP=6683;ECNT=22;MBQ=29,9,0;MFRL=330,378,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.153e-03;SAPP=3.390e-04,1.779e-04,0.999;TLOD=-3.495e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6489,14,0:1.600e-04,1.523e-04:6503:3231,6,0:3258,8,0 -MT 8500 . A C, . base_quality;t_lod CONTQ=93;DP=6688;ECNT=22;MBQ=29,11,0;MFRL=330,342,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.075e-03;SAPP=2.338e-04,2.830e-04,0.999;TLOD=-3.350e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6485,20,0:2.212e-04,1.523e-04:6505:3223,10,0:3262,10,0 -MT 8501 . A C, . base_quality;t_lod CONTQ=93;DP=6641;ECNT=22;MBQ=29,9,0;MFRL=330,390,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.076e-03;SAPP=2.294e-04,1.462e-04,1.000;TLOD=-3.420e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6497,7,0:1.876e-04,1.526e-04:6504:3232,3,0:3265,4,0 +MT 8498 . A C, . base_quality;t_lod CONTQ=93;DP=6684;ECNT=22;MBQ=29,18,0;MFRL=330,421,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6590,2,0:1.558e-04,1.508e-04:6592:3276,1,0:3314,1,0 +MT 8499 . A C, . base_quality;t_lod CONTQ=93;DP=6683;ECNT=22;MBQ=29,9,0;MFRL=330,378,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6489,14,0:1.600e-04,1.523e-04:6503:3231,6,0:3258,8,0 +MT 8500 . A C, . base_quality;t_lod CONTQ=93;DP=6688;ECNT=22;MBQ=29,11,0;MFRL=330,342,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.350e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6485,20,0:2.212e-04,1.523e-04:6505:3223,10,0:3262,10,0 +MT 8501 . A C, . base_quality;t_lod CONTQ=93;DP=6641;ECNT=22;MBQ=29,9,0;MFRL=330,390,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.420e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6497,7,0:1.876e-04,1.526e-04:6504:3232,3,0:3265,4,0 MT 8502 . A . . END=8503 GT:DP:MIN_DP:TLOD 0/0:6506:6478:-3.797e+00 -MT 8504 . T A, . base_quality;t_lod CONTQ=93;DP=6549;ECNT=22;MBQ=29,10,0;MFRL=329,295,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.252e-03;SAPP=0.021,4.979e-05,0.979;TLOD=-3.482e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6383,8,0:1.647e-04,1.553e-04:6391:3181,5,0:3202,3,0 +MT 8504 . T A, . base_quality;t_lod CONTQ=93;DP=6549;ECNT=22;MBQ=29,10,0;MFRL=329,295,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.482e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6383,8,0:1.647e-04,1.553e-04:6391:3181,5,0:3202,3,0 MT 8505 . A . . END=8505 GT:DP:MIN_DP:TLOD 0/0:6382:6382:-3.805e+00 MT 8506 . T . . END=8506 GT:DP:MIN_DP:TLOD 0/0:6375:6375:-3.362e+00 -MT 8507 . A C, . base_quality;t_lod CONTQ=93;DP=6539;ECNT=22;MBQ=29,9,0;MFRL=329,324,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.888e-03;SAPP=1.852e-04,2.350e-04,1.000;TLOD=-3.460e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6344,12,0:1.736e-04,1.558e-04:6356:3160,6,0:3184,6,0 +MT 8507 . A C, . base_quality;t_lod CONTQ=93;DP=6539;ECNT=22;MBQ=29,9,0;MFRL=329,324,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.460e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6344,12,0:1.736e-04,1.558e-04:6356:3160,6,0:3184,6,0 MT 8508 . A . . END=8509 GT:DP:MIN_DP:TLOD 0/0:6373:6368:-3.788e+00 -MT 8510 . A C, . base_quality;t_lod CONTQ=93;DP=6546;ECNT=22;MBQ=29,8,0;MFRL=328,351,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.154e-03;SAPP=1.082e-04,1.717e-03,0.998;TLOD=-3.471e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6321,20,0:1.693e-04,1.561e-04:6341:3135,13,0:3186,7,0 -MT 8511 . A C, . base_quality;t_lod CONTQ=93;DP=6540;ECNT=22;MBQ=29,4,0;MFRL=328,343,0;MMQ=60,58,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.992e-03;SAPP=8.138e-05,7.448e-03,0.992;TLOD=-3.389e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6331,19,0:2.021e-04,1.561e-04:6350:3138,15,0:3193,4,0 -MT 8512 . A G, . PASS CONTQ=93;DP=6535;ECNT=22;MBQ=12,29,0;MFRL=353,328,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.011,0.128,0.862;TLOD=20226.39,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:28,6317,0:0.999,1.565e-04:6345:14,3140,0:14,3177,0 +MT 8510 . A C, . base_quality;t_lod CONTQ=93;DP=6546;ECNT=22;MBQ=29,8,0;MFRL=328,351,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.471e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6321,20,0:1.693e-04,1.561e-04:6341:3135,13,0:3186,7,0 +MT 8511 . A C, . base_quality;t_lod CONTQ=93;DP=6540;ECNT=22;MBQ=29,4,0;MFRL=328,343,0;MMQ=60,58,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.389e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6331,19,0:2.021e-04,1.561e-04:6350:3138,15,0:3193,4,0 +MT 8512 . A G, . PASS CONTQ=93;DP=6535;ECNT=22;MBQ=12,29,0;MFRL=353,328,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20226.39,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:28,6317,0:0.999,1.565e-04:6345:14,3140,0:14,3177,0 MT 8513 . C . . END=8523 GT:DP:MIN_DP:TLOD 0/0:6365:6327:-3.805e+00 -MT 8524 . A ACAATG, . t_lod CONTQ=93;DP=6516;ECNT=22;MBQ=29,29,0;MFRL=327,309,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.584e-04;SAPP=4.705e-05,1.573e-04,1.000;TLOD=-3.505e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6312,1,0:1.562e-04,1.561e-04:6313:3092,0,0:3220,1,0 -MT 8525 . A C, . base_quality;t_lod CONTQ=93;DP=6505;ECNT=22;MBQ=29,9,0;MFRL=327,286,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.090e-03;SAPP=4.540e-05,0.020,0.980;TLOD=-3.490e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6416,7,0:1.620e-04,1.550e-04:6423:3138,5,0:3278,2,0 -MT 8526 . A C, . base_quality;t_lod CONTQ=93;DP=6495;ECNT=22;MBQ=29,8,0;MFRL=327,372,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.640e-03;SAPP=1.454e-04,5.409e-03,0.994;TLOD=-3.338e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6283,42,0:2.240e-04,1.574e-04:6325:3062,18,0:3221,24,0 +MT 8524 . A ACAATG, . t_lod CONTQ=93;DP=6516;ECNT=22;MBQ=29,29,0;MFRL=327,309,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6312,1,0:1.562e-04,1.561e-04:6313:3092,0,0:3220,1,0 +MT 8525 . A C, . base_quality;t_lod CONTQ=93;DP=6505;ECNT=22;MBQ=29,9,0;MFRL=327,286,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.490e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6416,7,0:1.620e-04,1.550e-04:6423:3138,5,0:3278,2,0 +MT 8526 . A C, . base_quality;t_lod CONTQ=93;DP=6495;ECNT=22;MBQ=29,8,0;MFRL=327,372,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.338e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6283,42,0:2.240e-04,1.574e-04:6325:3062,18,0:3221,24,0 MT 8527 . A . . END=8530 GT:DP:MIN_DP:TLOD 0/0:6302:6274:-3.782e+00 -MT 8531 . A C, . base_quality;t_lod CONTQ=93;DP=6463;ECNT=22;MBQ=29,7,0;MFRL=326,367,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.508e-03;SAPP=2.453e-06,0.948,0.052;TLOD=-3.500e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6363,16,0:1.581e-04,1.563e-04:6379:3084,8,0:3279,8,0 +MT 8531 . A C, . base_quality;t_lod CONTQ=93;DP=6463;ECNT=22;MBQ=29,7,0;MFRL=326,367,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.500e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6363,16,0:1.581e-04,1.563e-04:6379:3084,8,0:3279,8,0 MT 8532 . C . . END=8535 GT:DP:MIN_DP:TLOD 0/0:6275:6209:-3.790e+00 -MT 8536 . A T,C, . base_quality;t_lod CONTQ=93;DP=6451;ECNT=22;MBQ=29,4,9,0;MFRL=326,447,370,0;MMQ=60,60,60,0;MPOS=21,23,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.048e-03;SAPP=1.059e-04,0.026,0.974;TLOD=-3.327e+00,-3.154e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6245,4,38,0:1.571e-04,2.401e-04,1.568e-04:6287:2989,2,24,0:3256,2,14,0 +MT 8536 . A T,C, . base_quality;t_lod CONTQ=93;DP=6451;ECNT=22;MBQ=29,4,9,0;MFRL=326,447,370,0;MMQ=60,60,60,0;MPOS=21,23,0;POPAF=7.30,7.30,7.30;TLOD=-3.327e+00,-3.154e+00,-3.328e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6245,4,38,0:1.571e-04,2.401e-04,1.568e-04:6287:2989,2,24,0:3256,2,14,0 MT 8537 . A . . END=8538 GT:DP:MIN_DP:TLOD 0/0:6229:6197:-3.729e+00 -MT 8539 . C A, . base_quality;t_lod CONTQ=93;DP=6447;ECNT=22;MBQ=29,11,0;MFRL=327,306,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.666e-03;SAPP=0.900,5.883e-06,0.100;TLOD=-3.465e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6251,23,0:1.719e-04,1.583e-04:6274:2998,6,0:3253,17,0 +MT 8539 . C A, . base_quality;t_lod CONTQ=93;DP=6447;ECNT=22;MBQ=29,11,0;MFRL=327,306,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.465e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6251,23,0:1.719e-04,1.583e-04:6274:2998,6,0:3253,17,0 MT 8540 . T . . END=8541 GT:DP:MIN_DP:TLOD 0/0:6195:6169:-3.743e+00 -MT 8542 . T A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=6425;ECNT=22;MBQ=29,10,0;MFRL=326,355,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.574e-03;SAPP=1.000,2.757e-12,5.103e-08;TLOD=-3.458e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6196,41,0:1.748e-04,1.598e-04:6237:2972,6,0:3224,35,0 +MT 8542 . T A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=6425;ECNT=22;MBQ=29,10,0;MFRL=326,355,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.458e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6196,41,0:1.748e-04,1.598e-04:6237:2972,6,0:3224,35,0 MT 8543 . T . . END=8552 GT:DP:MIN_DP:TLOD 0/0:6961:6755:-3.824e+00 MT 8553 . C . . END=8553 GT:DP:MIN_DP:TLOD 0/0:6959:6959:-3.155e+00 MT 8554 . A . . END=8559 GT:DP:MIN_DP:TLOD 0/0:6951:6801:-3.801e+00 @@ -3645,25 +3643,25 @@ MT 8947 . C . . END=8956 GT:DP:MIN_DP:TLOD 0/0:2035:1816:-3.315e+00 MT 8957 . T . . END=8957 GT:DP:MIN_DP:TLOD 0/0:2296:2296:-2.754e+00 MT 8958 . C . . END=8960 GT:DP:MIN_DP:TLOD 0/0:2376:2338:-3.360e+00 MT 8961 . A . . END=8961 GT:DP:MIN_DP:TLOD 0/0:2490:2490:-2.842e+00 -MT 8962 . A C, . base_quality;t_lod CONTQ=93;DP=2609;ECNT=7;MBQ=29,8,0;MFRL=361,415,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.012;SAPP=4.790e-09,1.000,3.765e-05;TLOD=-2.906e+00,-3.101e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2478,31,0:5.904e-04,3.958e-04:2509:1188,19,0:1290,12,0 +MT 8962 . A C, . base_quality;t_lod CONTQ=93;DP=2609;ECNT=7;MBQ=29,8,0;MFRL=361,415,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-2.906e+00,-3.101e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2478,31,0:5.904e-04,3.958e-04:2509:1188,19,0:1290,12,0 MT 8963 . C . . END=8974 GT:DP:MIN_DP:TLOD 0/0:2804:2543:-3.467e+00 -MT 8975 . T C, . PASS CONTQ=93;DP=3234;ECNT=7;MBQ=30,29,0;MFRL=282,362,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.023,0.031,0.946;TLOD=10374.49,-3.201e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2,3139,0:0.999,3.145e-04:3141:1,1500,0:1,1639,0 +MT 8975 . T C, . PASS CONTQ=93;DP=3234;ECNT=7;MBQ=30,29,0;MFRL=282,362,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=10374.49,-3.201e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2,3139,0:0.999,3.145e-04:3141:1,1500,0:1,1639,0 MT 8976 . C . . END=8980 GT:DP:MIN_DP:TLOD 0/0:3263:3177:-3.462e+00 MT 8981 . A . . END=8982 GT:DP:MIN_DP:TLOD 0/0:3393:3382:-3.514e+00 MT 8983 . C . . END=8983 GT:DP:MIN_DP:TLOD 0/0:3460:3460:-3.441e+00 MT 8984 . C . . END=8984 GT:DP:MIN_DP:TLOD 0/0:3507:3507:-3.534e+00 -MT 8985 . A C, . base_quality;t_lod CONTQ=93;DP=3639;ECNT=7;MBQ=29,8,0;MFRL=356,462,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.606e-03;SAPP=2.508e-05,0.777,0.223;TLOD=-2.647e+00,-3.251e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3523,27,0:8.051e-04,2.806e-04:3550:1667,16,0:1856,11,0 +MT 8985 . A C, . base_quality;t_lod CONTQ=93;DP=3639;ECNT=7;MBQ=29,8,0;MFRL=356,462,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-2.647e+00,-3.251e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3523,27,0:8.051e-04,2.806e-04:3550:1667,16,0:1856,11,0 MT 8986 . A . . END=8986 GT:DP:MIN_DP:TLOD 0/0:3579:3579:-3.419e+00 MT 8987 . T . . END=8988 GT:DP:MIN_DP:TLOD 0/0:3627:3606:-3.554e+00 -MT 8989 . G T, . base_quality;t_lod CONTQ=93;DP=3806;ECNT=7;MBQ=29,13,0;MFRL=356,531,0;MMQ=60,59,0;MPOS=57,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.887e-03;SAPP=5.639e-04,1.840e-04,0.999;TLOD=-3.236e+00,-3.271e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3702,7,0:2.904e-04,2.676e-04:3709:1755,5,0:1947,2,0 +MT 8989 . G T, . base_quality;t_lod CONTQ=93;DP=3806;ECNT=7;MBQ=29,13,0;MFRL=356,531,0;MMQ=60,59,0;MPOS=57,0;POPAF=7.30,7.30;TLOD=-3.236e+00,-3.271e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3702,7,0:2.904e-04,2.676e-04:3709:1755,5,0:1947,2,0 MT 8990 . C . . END=8990 GT:DP:MIN_DP:TLOD 0/0:3737:3737:-3.435e+00 MT 8991 . C . . END=8997 GT:DP:MIN_DP:TLOD 0/0:3900:3804:-3.586e+00 -MT 8998 . G T, . base_quality;t_lod CONTQ=93;DP=4202;ECNT=7;MBQ=24,14,0;MFRL=354,423,0;MMQ=60,56,0;MPOS=69,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.864e-04;SAPP=3.924e-04,8.942e-05,1.000;TLOD=-3.314e+00,-3.315e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4110,2,0:2.423e-04,2.418e-04:4112:1954,2,0:2156,0,0 -MT 8999 . T C, . t_lod CONTQ=93;DP=4249;ECNT=7;MBQ=29,21,0;MFRL=355,440,0;MMQ=60,60,0;MPOS=66,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.225e-04;SAPP=1.037e-04,3.789e-04,1.000;TLOD=-3.139e+00,-3.321e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4149,3,0:3.460e-04,2.388e-04:4152:1974,2,0:2175,1,0 +MT 8998 . G T, . base_quality;t_lod CONTQ=93;DP=4202;ECNT=7;MBQ=24,14,0;MFRL=354,423,0;MMQ=60,56,0;MPOS=69,0;POPAF=7.30,7.30;TLOD=-3.314e+00,-3.315e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4110,2,0:2.423e-04,2.418e-04:4112:1954,2,0:2156,0,0 +MT 8999 . T C, . t_lod CONTQ=93;DP=4249;ECNT=7;MBQ=29,21,0;MFRL=355,440,0;MMQ=60,60,0;MPOS=66,0;POPAF=7.30,7.30;TLOD=-3.139e+00,-3.321e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4149,3,0:3.460e-04,2.388e-04:4152:1974,2,0:2175,1,0 MT 9000 . A . . END=9000 GT:DP:MIN_DP:TLOD 0/0:4210:4210:-3.616e+00 MT 9001 . C . . END=9001 GT:DP:MIN_DP:TLOD 0/0:4245:4245:-3.264e+00 MT 9002 . G . . END=9006 GT:DP:MIN_DP:TLOD 0/0:4413:4269:-3.646e+00 -MT 9007 . A C, . base_quality;t_lod CONTQ=93;DP=4617;ECNT=7;MBQ=29,11,0;MFRL=351,335,0;MMQ=60,59,0;MPOS=56,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.212e-03;SAPP=1.952e-04,4.667e-04,0.999;TLOD=-3.304e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4510,10,0:2.487e-04,2.198e-04:4520:2131,4,0:2379,6,0 +MT 9007 . A C, . base_quality;t_lod CONTQ=93;DP=4617;ECNT=7;MBQ=29,11,0;MFRL=351,335,0;MMQ=60,59,0;MPOS=56,0;POPAF=7.30,7.30;TLOD=-3.304e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4510,10,0:2.487e-04,2.198e-04:4520:2131,4,0:2379,6,0 MT 9008 . C . . END=9008 GT:DP:MIN_DP:TLOD 0/0:4823:4823:-3.439e+00 MT 9009 . C . . END=9009 GT:DP:MIN_DP:TLOD 0/0:4870:4870:-3.530e+00 MT 9010 . G . . END=9010 GT:DP:MIN_DP:TLOD 0/0:4854:4854:-2.282e+00 @@ -3758,38 +3756,38 @@ MT 9294 . G . . END=9295 GT:DP:MIN_DP:TLOD 0/0:6762:6715:-3.470e+00 MT 9296 . C . . END=9304 GT:DP:MIN_DP:TLOD 0/0:6935:6902:-3.838e+00 MT 9305 . G . . END=9305 GT:DP:MIN_DP:TLOD 0/0:6889:6889:-3.188e+00 MT 9306 . T . . END=9309 GT:DP:MIN_DP:TLOD 0/0:6921:6897:-3.763e+00 -MT 9310 . T C, . base_quality;t_lod CONTQ=93;DP=6550;ECNT=16;MBQ=29,8,0;MFRL=341,406,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.042e-03;SAPP=1.104e-04,8.045e-04,0.999;TLOD=-3.414e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6352,13,0:1.930e-04,1.558e-04:6365:3134,8,0:3218,5,0 -MT 9311 . T G, . base_quality;t_lod CONTQ=93;DP=6557;ECNT=16;MBQ=29,7,0;MFRL=341,312,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.569e-03;SAPP=2.110e-04,1.704e-04,1.000;TLOD=-3.495e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6362,10,0:1.599e-04,1.555e-04:6372:3137,6,0:3225,4,0 +MT 9310 . T C, . base_quality;t_lod CONTQ=93;DP=6550;ECNT=16;MBQ=29,8,0;MFRL=341,406,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.414e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6352,13,0:1.930e-04,1.558e-04:6365:3134,8,0:3218,5,0 +MT 9311 . T G, . base_quality;t_lod CONTQ=93;DP=6557;ECNT=16;MBQ=29,7,0;MFRL=341,312,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6362,10,0:1.599e-04,1.555e-04:6372:3137,6,0:3225,4,0 MT 9312 . C . . END=9312 GT:DP:MIN_DP:TLOD 0/0:6441:6441:-3.678e+00 -MT 9313 . A C, . base_quality;t_lod CONTQ=93;DP=6563;ECNT=16;MBQ=29,5,0;MFRL=342,337,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.391e-03;SAPP=1.643e-04,2.213e-04,1.000;TLOD=-3.504e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6460,9,0:1.568e-04,1.537e-04:6469:3193,6,0:3267,3,0 +MT 9313 . A C, . base_quality;t_lod CONTQ=93;DP=6563;ECNT=16;MBQ=29,5,0;MFRL=342,337,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.504e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6460,9,0:1.568e-04,1.537e-04:6469:3193,6,0:3267,3,0 MT 9314 . C . . END=9318 GT:DP:MIN_DP:TLOD 0/0:6466:6449:-3.807e+00 -MT 9319 . A C, . base_quality;t_lod CONTQ=93;DP=6601;ECNT=16;MBQ=28,8,0;MFRL=342,341,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.840e-03;SAPP=4.416e-05,0.547,0.453;TLOD=-3.336e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,57,0:2.394e-04,1.551e-04:6448:3154,30,0:3237,27,0 +MT 9319 . A C, . base_quality;t_lod CONTQ=93;DP=6601;ECNT=16;MBQ=28,8,0;MFRL=342,341,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.336e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,57,0:2.394e-04,1.551e-04:6448:3154,30,0:3237,27,0 MT 9320 . C . . END=9320 GT:DP:MIN_DP:TLOD 0/0:6584:6584:-3.816e+00 -MT 9321 . T A, . base_quality;t_lod CONTQ=93;DP=6645;ECNT=16;MBQ=29,10,0;MFRL=343,304,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.534e-04;SAPP=1.493e-04,4.586e-05,1.000;TLOD=-3.515e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6518,1,0:1.526e-04,1.525e-04:6519:3220,0,0:3298,1,0 +MT 9321 . T A, . base_quality;t_lod CONTQ=93;DP=6645;ECNT=16;MBQ=29,10,0;MFRL=343,304,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6518,1,0:1.526e-04,1.525e-04:6519:3220,0,0:3298,1,0 MT 9322 . C . . END=9322 GT:DP:MIN_DP:TLOD 0/0:6679:6679:-3.822e+00 -MT 9323 . C A, . base_quality;t_lod CONTQ=93;DP=6734;ECNT=16;MBQ=29,11,0;MFRL=343,284,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.054e-03;SAPP=9.620e-05,4.309e-04,0.999;TLOD=-3.521e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6633,7,0:1.506e-04,1.499e-04:6640:3269,2,0:3364,5,0 +MT 9323 . C A, . base_quality;t_lod CONTQ=93;DP=6734;ECNT=16;MBQ=29,11,0;MFRL=343,284,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.521e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6633,7,0:1.506e-04,1.499e-04:6640:3269,2,0:3364,5,0 MT 9324 . A . . END=9330 GT:DP:MIN_DP:TLOD 0/0:6790:6712:-3.833e+00 -MT 9331 . T C, . base_quality;t_lod CONTQ=93;DP=6730;ECNT=16;MBQ=29,8,0;MFRL=342,399,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.343e-03;SAPP=0.987,8.555e-07,0.013;TLOD=-3.364e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6579,42,0:2.201e-04,1.510e-04:6621:3234,16,0:3345,26,0 +MT 9331 . T C, . base_quality;t_lod CONTQ=93;DP=6730;ECNT=16;MBQ=29,8,0;MFRL=342,399,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.364e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6579,42,0:2.201e-04,1.510e-04:6621:3234,16,0:3345,26,0 MT 9332 . C . . END=9343 GT:DP:MIN_DP:TLOD 0/0:6407:6151:-3.805e+00 -MT 9344 . C A, . base_quality;t_lod CONTQ=93;DP=6181;ECNT=16;MBQ=29,11,0;MFRL=343,429,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.212e-04;SAPP=1.223e-04,1.864e-04,1.000;TLOD=-3.384e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6084,5,0:2.028e-04,1.634e-04:6089:2998,2,0:3086,3,0 +MT 9344 . C A, . base_quality;t_lod CONTQ=93;DP=6181;ECNT=16;MBQ=29,11,0;MFRL=343,429,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.384e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6084,5,0:2.028e-04,1.634e-04:6089:2998,2,0:3086,3,0 MT 9345 . C . . END=9352 GT:DP:MIN_DP:TLOD 0/0:5913:5752:-3.780e+00 -MT 9353 . C A, . base_quality;t_lod CONTQ=93;DP=5755;ECNT=16;MBQ=29,13,0;MFRL=343,359,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.237e-03;SAPP=2.726e-03,6.753e-05,0.997;TLOD=-3.385e+00,-3.454e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5654,7,0:2.051e-04,1.757e-04:5661:2789,3,0:2865,4,0 -MT 9354 . A C, . base_quality;t_lod CONTQ=93;DP=5708;ECNT=16;MBQ=29,8,0;MFRL=343,393,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.387e-03;SAPP=7.198e-04,1.652e-04,0.999;TLOD=-3.427e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5591,19,0:1.874e-04,1.775e-04:5610:2765,6,0:2826,13,0 +MT 9353 . C A, . base_quality;t_lod CONTQ=93;DP=5755;ECNT=16;MBQ=29,13,0;MFRL=343,359,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.385e+00,-3.454e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5654,7,0:2.051e-04,1.757e-04:5661:2789,3,0:2865,4,0 +MT 9354 . A C, . base_quality;t_lod CONTQ=93;DP=5708;ECNT=16;MBQ=29,8,0;MFRL=343,393,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.427e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5591,19,0:1.874e-04,1.775e-04:5610:2765,6,0:2826,13,0 MT 9355 . A . . END=9358 GT:DP:MIN_DP:TLOD 0/0:5532:5457:-3.733e+00 -MT 9359 . A T, . base_quality;t_lod CONTQ=93;DP=5525;ECNT=16;MBQ=29,10,0;MFRL=343,552,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.550e-04;SAPP=1.015e-04,1.891e-04,1.000;TLOD=-3.433e+00,-3.434e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5402,3,0:1.844e-04,1.839e-04:5405:2675,2,0:2727,1,0 +MT 9359 . A T, . base_quality;t_lod CONTQ=93;DP=5525;ECNT=16;MBQ=29,10,0;MFRL=343,552,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.433e+00,-3.434e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5402,3,0:1.844e-04,1.839e-04:5405:2675,2,0:2727,1,0 MT 9360 . C . . END=9364 GT:DP:MIN_DP:TLOD 0/0:5318:5230:-3.733e+00 -MT 9365 . C A, . base_quality;t_lod CONTQ=93;DP=5270;ECNT=16;MBQ=29,12,0;MFRL=343,412,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.740e-04;SAPP=4.370e-04,8.503e-05,0.999;TLOD=-3.296e+00,-3.415e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5164,4,0:2.462e-04,1.921e-04:5168:2552,1,0:2612,3,0 +MT 9365 . C A, . base_quality;t_lod CONTQ=93;DP=5270;ECNT=16;MBQ=29,12,0;MFRL=343,412,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.296e+00,-3.415e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5164,4,0:2.462e-04,1.921e-04:5168:2552,1,0:2612,3,0 MT 9366 . A . . END=9368 GT:DP:MIN_DP:TLOD 0/0:5090:5055:-3.694e+00 -MT 9369 . T A, . base_quality;t_lod CONTQ=93;DP=5089;ECNT=16;MBQ=29,9,0;MFRL=343,357,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.002e-03;SAPP=8.677e-04,8.387e-05,0.999;TLOD=-3.397e+00,-3.399e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4987,5,0:2.002e-04,1.993e-04:4992:2472,1,0:2515,4,0 +MT 9369 . T A, . base_quality;t_lod CONTQ=93;DP=5089;ECNT=16;MBQ=29,9,0;MFRL=343,357,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.397e+00,-3.399e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4987,5,0:2.002e-04,1.993e-04:4992:2472,1,0:2515,4,0 MT 9370 . A . . END=9374 GT:DP:MIN_DP:TLOD 0/0:4883:4770:-3.689e+00 -MT 9375 . T G, . base_quality;t_lod CONTQ=93;DP=4822;ECNT=16;MBQ=29,10,0;MFRL=343,272,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.00,0.010,8.455e-04;SAPP=2.471e-03,6.330e-05,0.997;TLOD=-3.372e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4727,4,0:2.125e-04,2.099e-04:4731:2338,0,0:2389,4,0:0|1:9375_T_G:9375 +MT 9375 . T G, . base_quality;t_lod CONTQ=93;DP=4822;ECNT=16;MBQ=29,10,0;MFRL=343,272,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.372e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4727,4,0:2.125e-04,2.099e-04:4731:2338,0,0:2389,4,0:0|1:9375_T_G:9375 MT 9376 . G . . END=9378 GT:DP:MIN_DP:TLOD 0/0:4631:4624:-3.656e+00 MT 9379 . G . . END=9379 GT:DP:MIN_DP:TLOD 0/0:4630:4630:-3.310e+00 MT 9380 . G . . END=9382 GT:DP:MIN_DP:TLOD 0/0:4608:4565:-3.644e+00 MT 9383 . C . . END=9383 GT:DP:MIN_DP:TLOD 0/0:4596:4596:-3.424e+00 MT 9384 . G . . END=9398 GT:DP:MIN_DP:TLOD 0/0:4621:4570:-3.666e+00 -MT 9399 . A C, . base_quality;t_lod CONTQ=93;DP=4788;ECNT=16;MBQ=29,5,0;MFRL=345,381,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.034e-03;SAPP=0.031,8.439e-05,0.969;TLOD=-3.363e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4600,14,0:2.170e-04,2.140e-04:4614:2233,3,0:2367,11,0 -MT 9400 . G T, . base_quality;t_lod CONTQ=93;DP=4787;ECNT=16;MBQ=29,13,0;MFRL=345,182,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.259e-04;SAPP=5.172e-04,6.521e-05,0.999;TLOD=-3.370e+00,-3.374e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4694,2,0:2.135e-04,2.113e-04:4696:2275,0,0:2419,2,0:0|1:9375_T_G:9375 +MT 9399 . A C, . base_quality;t_lod CONTQ=93;DP=4788;ECNT=16;MBQ=29,5,0;MFRL=345,381,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.363e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4600,14,0:2.170e-04,2.140e-04:4614:2233,3,0:2367,11,0 +MT 9400 . G T, . base_quality;t_lod CONTQ=93;DP=4787;ECNT=16;MBQ=29,13,0;MFRL=345,182,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.370e+00,-3.374e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4694,2,0:2.135e-04,2.113e-04:4696:2275,0,0:2419,2,0:0|1:9375_T_G:9375 MT 9401 . C . . END=9402 GT:DP:MIN_DP:TLOD 0/0:4960:4952:-3.424e+00 MT 9403 . C . . END=9403 GT:DP:MIN_DP:TLOD 0/0:4959:4959:-3.688e+00 MT 9404 . A . . END=9405 GT:DP:MIN_DP:TLOD 0/0:4960:4944:-3.397e+00 @@ -4130,51 +4128,51 @@ MT 10286 . A . . END=10286 GT:DP:MIN_DP:TLOD 0/0:7194:7194:-3.309e+00 MT 10287 . T . . END=10289 GT:DP:MIN_DP:TLOD 0/0:7129:7089:-3.848e+00 MT 10290 . G . . END=10290 GT:DP:MIN_DP:TLOD 0/0:7090:7090:-3.430e+00 MT 10291 . C . . END=10292 GT:DP:MIN_DP:TLOD 0/0:7171:7149:-3.771e+00 -MT 10293 . C A, . base_quality;t_lod CONTQ=93;DP=6892;ECNT=25;MBQ=29,18,0;MFRL=342,382,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.190e-03;SAPP=3.731e-04,1.123e-04,1.000;TLOD=-3.186e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6716,8,0:3.026e-04,1.475e-04:6724:3443,4,0:3273,4,0 +MT 10293 . C A, . base_quality;t_lod CONTQ=93;DP=6892;ECNT=25;MBQ=29,18,0;MFRL=342,382,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;TLOD=-3.186e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6716,8,0:3.026e-04,1.475e-04:6724:3443,4,0:3273,4,0 MT 10294 . T . . END=10297 GT:DP:MIN_DP:TLOD 0/0:6765:6757:-3.827e+00 -MT 10298 . A C, . base_quality;t_lod CONTQ=93;DP=6910;ECNT=25;MBQ=29,9,0;MFRL=342,402,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.786e-03;SAPP=5.381e-05,0.025,0.975;TLOD=-3.453e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6706,12,0:1.770e-04,1.475e-04:6718:3420,8,0:3286,4,0 +MT 10298 . A C, . base_quality;t_lod CONTQ=93;DP=6910;ECNT=25;MBQ=29,9,0;MFRL=342,402,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.453e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6706,12,0:1.770e-04,1.475e-04:6718:3420,8,0:3286,4,0 MT 10299 . A . . END=10300 GT:DP:MIN_DP:TLOD 0/0:6748:6742:-3.743e+00 -MT 10301 . A C, . base_quality;t_lod CONTQ=93;DP=6918;ECNT=25;MBQ=29,9,0;MFRL=342,364,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.766e-03;SAPP=5.346e-05,0.262,0.738;TLOD=-3.502e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6682,32,0:1.578e-04,1.479e-04:6714:3395,15,0:3287,17,0 -MT 10302 . A C, . base_quality;t_lod CONTQ=93;DP=6919;ECNT=25;MBQ=29,8,0;MFRL=343,476,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.959e-03;SAPP=6.684e-05,0.212,0.788;TLOD=-3.385e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6672,40,0:2.107e-04,1.481e-04:6712:3378,19,0:3294,21,0 +MT 10301 . A C, . base_quality;t_lod CONTQ=93;DP=6918;ECNT=25;MBQ=29,9,0;MFRL=342,364,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.502e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6682,32,0:1.578e-04,1.479e-04:6714:3395,15,0:3287,17,0 +MT 10302 . A C, . base_quality;t_lod CONTQ=93;DP=6919;ECNT=25;MBQ=29,8,0;MFRL=343,476,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.385e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6672,40,0:2.107e-04,1.481e-04:6712:3378,19,0:3294,21,0 MT 10303 . C . . END=10304 GT:DP:MIN_DP:TLOD 0/0:6742:6733:-3.831e+00 -MT 10305 . A C, . base_quality;t_lod CONTQ=93;DP=6909;ECNT=25;MBQ=29,8,0;MFRL=343,377,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.933e-03;SAPP=5.215e-05,0.047,0.953;TLOD=-3.526e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6713,13,0:1.489e-04,1.476e-04:6726:3402,5,0:3311,8,0 +MT 10305 . A C, . base_quality;t_lod CONTQ=93;DP=6909;ECNT=25;MBQ=29,8,0;MFRL=343,377,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.526e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6713,13,0:1.489e-04,1.476e-04:6726:3402,5,0:3311,8,0 MT 10306 . A . . END=10309 GT:DP:MIN_DP:TLOD 0/0:6758:6692:-3.794e+00 -MT 10310 . G T, . base_quality;t_lod CONTQ=93;DP=6917;ECNT=25;MBQ=29,9,0;MFRL=343,369,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.376e-03;SAPP=8.598e-05,3.392e-03,0.997;TLOD=-3.482e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6719,16,0:1.648e-04,1.473e-04:6735:3382,12,0:3337,4,0 -MT 10311 . C A, . base_quality;t_lod CONTQ=93;DP=6929;ECNT=25;MBQ=29,14,0;MFRL=343,382,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.934e-04;SAPP=1.153e-04,1.131e-04,1.000;TLOD=-3.531e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6737,4,0:1.472e-04,1.468e-04:6741:3401,3,0:3336,1,0 +MT 10310 . G T, . base_quality;t_lod CONTQ=93;DP=6917;ECNT=25;MBQ=29,9,0;MFRL=343,369,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.482e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6719,16,0:1.648e-04,1.473e-04:6735:3382,12,0:3337,4,0 +MT 10311 . C A, . base_quality;t_lod CONTQ=93;DP=6929;ECNT=25;MBQ=29,14,0;MFRL=343,382,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;TLOD=-3.531e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6737,4,0:1.472e-04,1.468e-04:6741:3401,3,0:3336,1,0 MT 10312 . C . . END=10313 GT:DP:MIN_DP:TLOD 0/0:6776:6768:-3.784e+00 -MT 10314 . C A, . base_quality;t_lod CONTQ=93;DP=6927;ECNT=25;MBQ=29,13,0;MFRL=344,307,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.403e-04;SAPP=6.510e-05,4.711e-04,0.999;TLOD=-3.531e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6749,5,0:1.472e-04,1.467e-04:6754:3431,4,0:3318,1,0 +MT 10314 . C A, . base_quality;t_lod CONTQ=93;DP=6927;ECNT=25;MBQ=29,13,0;MFRL=344,307,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.531e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6749,5,0:1.472e-04,1.467e-04:6754:3431,4,0:3318,1,0 MT 10315 . T . . END=10315 GT:DP:MIN_DP:TLOD 0/0:6784:6784:-3.803e+00 -MT 10316 . A C, . base_quality;t_lod CONTQ=93;DP=6934;ECNT=25;MBQ=29,9,0;MFRL=344,298,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.629e-03;SAPP=4.421e-04,1.042e-04,0.999;TLOD=-3.529e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6742,11,0:1.479e-04,1.468e-04:6753:3434,5,0:3308,6,0 -MT 10317 . A C, . base_quality;t_lod CONTQ=93;DP=6941;ECNT=25;MBQ=29,6,0;MFRL=344,555,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.221e-03;SAPP=3.077e-04,1.991e-04,0.999;TLOD=-3.526e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6739,15,0:1.488e-04,1.468e-04:6754:3431,6,0:3308,9,0 +MT 10316 . A C, . base_quality;t_lod CONTQ=93;DP=6934;ECNT=25;MBQ=29,9,0;MFRL=344,298,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.529e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6742,11,0:1.479e-04,1.468e-04:6753:3434,5,0:3308,6,0 +MT 10317 . A C, . base_quality;t_lod CONTQ=93;DP=6941;ECNT=25;MBQ=29,6,0;MFRL=344,555,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.526e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6739,15,0:1.488e-04,1.468e-04:6754:3431,6,0:3308,9,0 MT 10318 . T . . END=10324 GT:DP:MIN_DP:TLOD 0/0:6816:6750:-3.822e+00 -MT 10325 . G T, . base_quality;t_lod CONTQ=93;DP=6960;ECNT=25;MBQ=29,14,0;MFRL=344,418,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.183e-03;SAPP=3.255e-03,5.863e-05,0.997;TLOD=-3.511e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6756,8,0:1.543e-04,1.463e-04:6764:3420,3,0:3336,5,0 +MT 10325 . G T, . base_quality;t_lod CONTQ=93;DP=6960;ECNT=25;MBQ=29,14,0;MFRL=344,418,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6756,8,0:1.543e-04,1.463e-04:6764:3420,3,0:3336,5,0 MT 10326 . T . . END=10329 GT:DP:MIN_DP:TLOD 0/0:6821:6802:-3.830e+00 -MT 10330 . C A, . base_quality;t_lod CONTQ=93;DP=6932;ECNT=25;MBQ=29,11,0;MFRL=345,471,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.183e-03;SAPP=8.553e-04,7.884e-05,0.999;TLOD=-3.530e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6754,8,0:1.474e-04,1.466e-04:6762:3408,3,0:3346,5,0 -MT 10331 . C A, . base_quality;t_lod CONTQ=93;DP=6929;ECNT=25;MBQ=29,14,0;MFRL=345,370,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.482e-03;SAPP=3.202e-04,1.200e-04,1.000;TLOD=-3.123e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6739,10,0:3.328e-04,1.468e-04:6749:3399,1,0:3340,9,0 +MT 10330 . C A, . base_quality;t_lod CONTQ=93;DP=6932;ECNT=25;MBQ=29,11,0;MFRL=345,471,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.530e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6754,8,0:1.474e-04,1.466e-04:6762:3408,3,0:3346,5,0 +MT 10331 . C A, . base_quality;t_lod CONTQ=93;DP=6929;ECNT=25;MBQ=29,14,0;MFRL=345,370,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.123e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6739,10,0:3.328e-04,1.468e-04:6749:3399,1,0:3340,9,0 MT 10332 . C . . END=10333 GT:DP:MIN_DP:TLOD 0/0:6808:6799:-3.833e+00 MT 10334 . C . . END=10334 GT:DP:MIN_DP:TLOD 0/0:6799:6799:-3.491e+00 MT 10335 . T . . END=10335 GT:DP:MIN_DP:TLOD 0/0:6787:6787:-3.820e+00 -MT 10336 . T C, . base_quality;t_lod CONTQ=93;DP=6902;ECNT=25;MBQ=29,10,0;MFRL=346,427,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.339e-03;SAPP=4.981e-04,9.901e-05,0.999;TLOD=-3.408e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6711,9,0:1.957e-04,1.474e-04:6720:3377,4,0:3334,5,0 +MT 10336 . T C, . base_quality;t_lod CONTQ=93;DP=6902;ECNT=25;MBQ=29,10,0;MFRL=346,427,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.408e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6711,9,0:1.957e-04,1.474e-04:6720:3377,4,0:3334,5,0 MT 10337 . A . . END=10337 GT:DP:MIN_DP:TLOD 0/0:6771:6771:-3.810e+00 -MT 10338 . T G, . base_quality;t_lod CONTQ=93;DP=6895;ECNT=25;MBQ=29,7,0;MFRL=346,332,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.086e-03;SAPP=9.142e-05,1.482e-03,0.998;TLOD=-3.460e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6698,14,0:1.737e-04,1.476e-04:6712:3358,7,0:3340,7,0 -MT 10339 . T C, . base_quality;t_lod CONTQ=93;DP=6898;ECNT=25;MBQ=29,10,0;MFRL=346,314,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.456e-04;SAPP=4.635e-04,6.628e-05,0.999;TLOD=-3.494e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6701,5,0:1.604e-04,1.475e-04:6706:3353,2,0:3348,3,0 -MT 10340 . A C, . base_quality;t_lod CONTQ=93;DP=6888;ECNT=25;MBQ=29,9,0;MFRL=346,316,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.343e-03;SAPP=1.410e-04,2.615e-04,1.000;TLOD=-3.436e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6692,9,0:1.811e-04,1.478e-04:6701:3353,3,0:3339,6,0 +MT 10338 . T G, . base_quality;t_lod CONTQ=93;DP=6895;ECNT=25;MBQ=29,7,0;MFRL=346,332,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.460e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6698,14,0:1.737e-04,1.476e-04:6712:3358,7,0:3340,7,0 +MT 10339 . T C, . base_quality;t_lod CONTQ=93;DP=6898;ECNT=25;MBQ=29,10,0;MFRL=346,314,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6701,5,0:1.604e-04,1.475e-04:6706:3353,2,0:3348,3,0 +MT 10340 . A C, . base_quality;t_lod CONTQ=93;DP=6888;ECNT=25;MBQ=29,9,0;MFRL=346,316,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.436e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6692,9,0:1.811e-04,1.478e-04:6701:3353,3,0:3339,6,0 MT 10341 . A . . END=10341 GT:DP:MIN_DP:TLOD 0/0:6759:6759:-3.777e+00 -MT 10342 . T C, . base_quality;t_lod CONTQ=93;DP=6882;ECNT=25;MBQ=29,5,0;MFRL=346,365,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.044e-03;SAPP=4.912e-04,8.910e-05,0.999;TLOD=-3.527e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6698,7,0:1.485e-04,1.478e-04:6705:3349,3,0:3349,4,0 +MT 10342 . T C, . base_quality;t_lod CONTQ=93;DP=6882;ECNT=25;MBQ=29,5,0;MFRL=346,365,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.527e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6698,7,0:1.485e-04,1.478e-04:6705:3349,3,0:3349,4,0 MT 10343 . C . . END=10343 GT:DP:MIN_DP:TLOD 0/0:6761:6761:-3.724e+00 -MT 10344 . A C, . base_quality;t_lod CONTQ=93;DP=6874;ECNT=25;MBQ=29,9,0;MFRL=346,429,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.285e-03;SAPP=5.125e-04,1.583e-04,0.999;TLOD=-3.496e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6675,22,0:1.597e-04,1.482e-04:6697:3343,12,0:3332,10,0 +MT 10344 . A C, . base_quality;t_lod CONTQ=93;DP=6874;ECNT=25;MBQ=29,9,0;MFRL=346,429,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.496e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6675,22,0:1.597e-04,1.482e-04:6697:3343,12,0:3332,10,0 MT 10345 . T . . END=10346 GT:DP:MIN_DP:TLOD 0/0:6756:6755:-3.823e+00 -MT 10347 . A C, . base_quality;t_lod CONTQ=93;DP=6868;ECNT=25;MBQ=29,8,0;MFRL=346,340,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.144e-03;SAPP=6.894e-04,1.366e-04,0.999;TLOD=-3.460e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6658,21,0:1.742e-04,1.485e-04:6679:3336,9,0:3322,12,0 +MT 10347 . A C, . base_quality;t_lod CONTQ=93;DP=6868;ECNT=25;MBQ=29,8,0;MFRL=346,340,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.460e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6658,21,0:1.742e-04,1.485e-04:6679:3336,9,0:3322,12,0 MT 10348 . T . . END=10351 GT:DP:MIN_DP:TLOD 0/0:6751:6735:-3.827e+00 MT 10352 . A . . END=10352 GT:DP:MIN_DP:TLOD 0/0:6715:6715:-3.382e+00 -MT 10353 . G T, . base_quality;t_lod CONTQ=93;DP=6832;ECNT=25;MBQ=29,14,0;MFRL=345,449,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.808e-03;SAPP=3.013e-04,1.386e-04,1.000;TLOD=-3.512e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6627,12,0:1.540e-04,1.493e-04:6639:3311,8,0:3316,4,0 -MT 10354 . C T, . base_quality;t_lod CONTQ=93;DP=6828;ECNT=25;MBQ=29,16,0;MFRL=345,459,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.020e-04;SAPP=4.672e-05,1.451e-03,0.999;TLOD=-3.470e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6641,4,0:1.699e-04,1.490e-04:6645:3316,2,0:3325,2,0 -MT 10355 . C A, . base_quality;t_lod CONTQ=93;DP=6829;ECNT=25;MBQ=29,14,0;MFRL=345,412,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.656e-03;SAPP=6.546e-05,3.459e-03,0.996;TLOD=-3.404e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6630,11,0:1.997e-04,1.492e-04:6641:3311,6,0:3319,5,0 +MT 10353 . G T, . base_quality;t_lod CONTQ=93;DP=6832;ECNT=25;MBQ=29,14,0;MFRL=345,449,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.512e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6627,12,0:1.540e-04,1.493e-04:6639:3311,8,0:3316,4,0 +MT 10354 . C T, . base_quality;t_lod CONTQ=93;DP=6828;ECNT=25;MBQ=29,16,0;MFRL=345,459,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.470e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6641,4,0:1.699e-04,1.490e-04:6645:3316,2,0:3325,2,0 +MT 10355 . C A, . base_quality;t_lod CONTQ=93;DP=6829;ECNT=25;MBQ=29,14,0;MFRL=345,412,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.404e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6630,11,0:1.997e-04,1.492e-04:6641:3311,6,0:3319,5,0 MT 10356 . C . . END=10356 GT:DP:MIN_DP:TLOD 0/0:6725:6725:-3.464e+00 MT 10357 . T . . END=10357 GT:DP:MIN_DP:TLOD 0/0:6700:6700:-3.822e+00 -MT 10358 . A C, . base_quality;t_lod CONTQ=93;DP=6818;ECNT=25;MBQ=29,7,0;MFRL=345,390,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.163e-03;SAPP=2.873e-04,2.248e-04,0.999;TLOD=-3.447e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6618,21,0:1.799e-04,1.495e-04:6639:3295,12,0:3323,9,0 +MT 10358 . A C, . base_quality;t_lod CONTQ=93;DP=6818;ECNT=25;MBQ=29,7,0;MFRL=345,390,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.447e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6618,21,0:1.799e-04,1.495e-04:6639:3295,12,0:3323,9,0 MT 10359 . A . . END=10359 GT:DP:MIN_DP:TLOD 0/0:6668:6668:-3.769e+00 -MT 10360 . G T, . base_quality;t_lod CONTQ=93;DP=6815;ECNT=25;MBQ=29,12,0;MFRL=345,370,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.812e-03;SAPP=5.989e-04,1.025e-04,0.999;TLOD=-3.520e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6612,12,0:1.509e-04,1.497e-04:6624:3287,9,0:3325,3,0 +MT 10360 . G T, . base_quality;t_lod CONTQ=93;DP=6815;ECNT=25;MBQ=29,12,0;MFRL=345,370,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6612,12,0:1.509e-04,1.497e-04:6624:3287,9,0:3325,3,0 MT 10361 . T . . END=10361 GT:DP:MIN_DP:TLOD 0/0:7163:7163:-3.792e+00 MT 10362 . C . . END=10362 GT:DP:MIN_DP:TLOD 0/0:7171:7171:-3.447e+00 MT 10363 . T . . END=10363 GT:DP:MIN_DP:TLOD 0/0:7191:7191:-3.826e+00 @@ -4348,44 +4346,44 @@ MT 10911 . G . . END=10911 GT:DP:MIN_DP:TLOD 0/0:6995:6995:-3.159e+00 MT 10912 . C . . END=10913 GT:DP:MIN_DP:TLOD 0/0:7031:7029:-3.838e+00 MT 10914 . G . . END=10915 GT:DP:MIN_DP:TLOD 0/0:6953:6915:-3.499e+00 MT 10916 . T . . END=10916 GT:DP:MIN_DP:TLOD 0/0:6960:6960:-3.733e+00 -MT 10917 . C A, . base_quality;t_lod CONTQ=93;DP=4542;ECNT=18;MBQ=29,8,0;MFRL=336,504,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.097e-04;SAPP=2.674e-03,6.704e-05,0.997;TLOD=-3.346e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4393,4,0:2.255e-04,2.246e-04:4397:2137,4,0:2256,0,0 +MT 10917 . C A, . base_quality;t_lod CONTQ=93;DP=4542;ECNT=18;MBQ=29,8,0;MFRL=336,504,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.346e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4393,4,0:2.255e-04,2.246e-04:4397:2137,4,0:2256,0,0 MT 10918 . C . . END=10918 GT:DP:MIN_DP:TLOD 0/0:4414:4414:-3.642e+00 MT 10919 . C . . END=10919 GT:DP:MIN_DP:TLOD 0/0:4412:4412:-3.382e+00 -MT 10920 . C A, . base_quality;t_lod CONTQ=93;DP=4548;ECNT=18;MBQ=29,14,0;MFRL=337,303,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.00,9.085e-04;SAPP=1.288e-04,5.169e-04,0.999;TLOD=-3.346e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4399,4,0:2.253e-04,2.243e-04:4403:2131,2,0:2268,2,0 +MT 10920 . C A, . base_quality;t_lod CONTQ=93;DP=4548;ECNT=18;MBQ=29,14,0;MFRL=337,303,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.346e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4399,4,0:2.253e-04,2.243e-04:4403:2131,2,0:2268,2,0 MT 10921 . A . . END=10921 GT:DP:MIN_DP:TLOD 0/0:4397:4397:-2.851e+00 -MT 10922 . A C, . base_quality;t_lod CONTQ=93;DP=4551;ECNT=18;MBQ=28,7,0;MFRL=336,377,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.682e-03;SAPP=1.913e-04,0.025,0.975;TLOD=-3.273e+00,-3.343e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4339,38,0:2.687e-04,2.268e-04:4377:2090,22,0:2249,16,0 +MT 10922 . A C, . base_quality;t_lod CONTQ=93;DP=4551;ECNT=18;MBQ=28,7,0;MFRL=336,377,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.273e+00,-3.343e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4339,38,0:2.687e-04,2.268e-04:4377:2090,22,0:2249,16,0 MT 10923 . C . . END=10931 GT:DP:MIN_DP:TLOD 0/0:4358:4308:-3.641e+00 MT 10932 . C . . END=10932 GT:DP:MIN_DP:TLOD 0/0:4368:4368:-3.409e+00 MT 10933 . C . . END=10933 GT:DP:MIN_DP:TLOD 0/0:4321:4321:-3.638e+00 -MT 10934 . G T, . base_quality;t_lod CONTQ=93;DP=4600;ECNT=18;MBQ=24,10,0;MFRL=336,436,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.805e-03;SAPP=5.294e-04,1.675e-04,0.999;TLOD=-3.191e+00,-3.349e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4423,8,0:3.173e-04,2.239e-04:4431:2079,5,0:2344,3,0 -MT 10935 . A C, . base_quality;t_lod CONTQ=93;DP=4604;ECNT=18;MBQ=27,5,0;MFRL=335,345,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.020,0.020,0.022;SAPP=0.387,1.241e-04,0.612;TLOD=-2.927e+00,-3.340e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4280,96,0:6.307e-04,2.289e-04:4376:1993,58,0:2287,38,0 -MT 10936 . C A, . base_quality;t_lod CONTQ=93;DP=4609;ECNT=18;MBQ=29,18,0;MFRL=336,477,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.736e-04;SAPP=6.580e-03,4.963e-05,0.993;TLOD=-3.252e+00,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4451,3,0:2.771e-04,2.220e-04:4454:2088,3,0:2363,0,0 -MT 10937 . C A, . base_quality;t_lod CONTQ=93;DP=4617;ECNT=18;MBQ=29,11,0;MFRL=335,311,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.795e-03;SAPP=1.149e-03,1.178e-04,0.999;TLOD=-3.349e+00,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4450,8,0:2.236e-04,2.218e-04:4458:2092,5,0:2358,3,0 +MT 10934 . G T, . base_quality;t_lod CONTQ=93;DP=4600;ECNT=18;MBQ=24,10,0;MFRL=336,436,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.191e+00,-3.349e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4423,8,0:3.173e-04,2.239e-04:4431:2079,5,0:2344,3,0 +MT 10935 . A C, . base_quality;t_lod CONTQ=93;DP=4604;ECNT=18;MBQ=27,5,0;MFRL=335,345,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-2.927e+00,-3.340e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4280,96,0:6.307e-04,2.289e-04:4376:1993,58,0:2287,38,0 +MT 10936 . C A, . base_quality;t_lod CONTQ=93;DP=4609;ECNT=18;MBQ=29,18,0;MFRL=336,477,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.252e+00,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4451,3,0:2.771e-04,2.220e-04:4454:2088,3,0:2363,0,0 +MT 10937 . C A, . base_quality;t_lod CONTQ=93;DP=4617;ECNT=18;MBQ=29,11,0;MFRL=335,311,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.349e+00,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4450,8,0:2.236e-04,2.218e-04:4458:2092,5,0:2358,3,0 MT 10938 . C . . END=10938 GT:DP:MIN_DP:TLOD 0/0:4319:4319:-3.516e+00 MT 10939 . C . . END=10939 GT:DP:MIN_DP:TLOD 0/0:4340:4340:-3.219e+00 -MT 10940 . C A, . base_quality;t_lod CONTQ=93;DP=4649;ECNT=18;MBQ=29,8,0;MFRL=337,405,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.674e-04;SAPP=6.028e-03,4.966e-05,0.994;TLOD=-3.356e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4492,3,0:2.204e-04,2.197e-04:4495:2096,2,0:2396,1,0 -MT 10941 . T C, . base_quality;t_lod CONTQ=93;DP=4656;ECNT=18;MBQ=29,2,0;MFRL=337,329,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.731e-03;SAPP=1.000,2.464e-18,4.571e-14;TLOD=-3.303e+00,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4428,39,0:2.502e-04,2.221e-04:4467:2060,17,0:2368,22,0 -MT 10942 . A C, . base_quality;t_lod CONTQ=93;DP=4672;ECNT=18;MBQ=28,7,0;MFRL=337,314,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.010;SAPP=0.999,5.702e-08,6.325e-04;TLOD=-3.331e+00,-3.352e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4417,46,0:2.338e-04,2.223e-04:4463:2057,21,0:2360,25,0 +MT 10940 . C A, . base_quality;t_lod CONTQ=93;DP=4649;ECNT=18;MBQ=29,8,0;MFRL=337,405,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.356e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4492,3,0:2.204e-04,2.197e-04:4495:2096,2,0:2396,1,0 +MT 10941 . T C, . base_quality;t_lod CONTQ=93;DP=4656;ECNT=18;MBQ=29,2,0;MFRL=337,329,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.303e+00,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4428,39,0:2.502e-04,2.221e-04:4467:2060,17,0:2368,22,0 +MT 10942 . A C, . base_quality;t_lod CONTQ=93;DP=4672;ECNT=18;MBQ=28,7,0;MFRL=337,314,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.331e+00,-3.352e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4417,46,0:2.338e-04,2.223e-04:4463:2057,21,0:2360,25,0 MT 10943 . A . . END=10944 GT:DP:MIN_DP:TLOD 0/0:4304:4299:-3.495e+00 -MT 10945 . A C, . base_quality;t_lod CONTQ=93;DP=4689;ECNT=18;MBQ=28,7,0;MFRL=336,337,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.526e-03;SAPP=0.567,5.205e-05,0.433;TLOD=-3.011e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4471,43,0:3.990e-04,2.207e-04:4514:2068,20,0:2403,23,0 -MT 10946 . A C, . base_quality;t_lod CONTQ=93;DP=4704;ECNT=18;MBQ=26,6,0;MFRL=335,372,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.030,0.020,0.031;SAPP=4.228e-04,9.671e-03,0.990;TLOD=-1.022e+00,-3.346e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4352,138,0:2.290e-03,2.254e-04:4490:1994,72,0:2358,66,0 +MT 10945 . A C, . base_quality;t_lod CONTQ=93;DP=4689;ECNT=18;MBQ=28,7,0;MFRL=336,337,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.011e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4471,43,0:3.990e-04,2.207e-04:4514:2068,20,0:2403,23,0 +MT 10946 . A C, . base_quality;t_lod CONTQ=93;DP=4704;ECNT=18;MBQ=26,6,0;MFRL=335,372,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-1.022e+00,-3.346e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4352,138,0:2.290e-03,2.254e-04:4490:1994,72,0:2358,66,0 MT 10947 . C . . END=10947 GT:DP:MIN_DP:TLOD 0/0:4312:4312:-3.477e+00 MT 10948 . C . . END=10948 GT:DP:MIN_DP:TLOD 0/0:4406:4406:-3.595e+00 MT 10949 . C . . END=10952 GT:DP:MIN_DP:TLOD 0/0:4446:4424:-3.440e+00 -MT 10953 . T C, . base_quality;t_lod CONTQ=93;DP=4749;ECNT=18;MBQ=28,4,0;MFRL=336,335,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.020;SAPP=1.00,0.00,0.00;TLOD=-3.198e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4449,93,0:3.276e-04,2.198e-04:4542:2038,59,0:2411,34,0 +MT 10953 . T C, . base_quality;t_lod CONTQ=93;DP=4749;ECNT=18;MBQ=28,4,0;MFRL=336,335,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.198e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4449,93,0:3.276e-04,2.198e-04:4542:2038,59,0:2411,34,0 MT 10954 . C . . END=10954 GT:DP:MIN_DP:TLOD 0/0:4461:4461:-3.654e+00 -MT 10955 . C A, . t_lod CONTQ=93;DP=4755;ECNT=18;MBQ=29,29,0;MFRL=336,385,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.482e-04;SAPP=6.433e-04,7.369e-05,0.999;TLOD=-2.821e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4625,3,0:5.299e-04,2.139e-04:4628:2129,0,0:2496,3,0 +MT 10955 . C A, . t_lod CONTQ=93;DP=4755;ECNT=18;MBQ=29,29,0;MFRL=336,385,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-2.821e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4625,3,0:5.299e-04,2.139e-04:4628:2129,0,0:2496,3,0 MT 10956 . T . . END=10956 GT:DP:MIN_DP:TLOD 0/0:4472:4472:-3.546e+00 MT 10957 . A . . END=10957 GT:DP:MIN_DP:TLOD 0/0:4454:4454:-3.322e+00 -MT 10958 . A C, . base_quality;t_lod CONTQ=93;DP=4763;ECNT=18;MBQ=29,5,0;MFRL=337,320,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.746e-03;SAPP=0.188,9.027e-05,0.812;TLOD=-2.947e+00,-3.365e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4564,31,0:5.406e-04,2.160e-04:4595:2079,15,0:2485,16,0 +MT 10958 . A C, . base_quality;t_lod CONTQ=93;DP=4763;ECNT=18;MBQ=29,5,0;MFRL=337,320,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-2.947e+00,-3.365e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4564,31,0:5.406e-04,2.160e-04:4595:2079,15,0:2485,16,0 MT 10959 . T . . END=10959 GT:DP:MIN_DP:TLOD 0/0:4486:4486:-3.571e+00 -MT 10960 . A C, . base_quality;t_lod CONTQ=93;DP=4759;ECNT=18;MBQ=28,8,0;MFRL=336,348,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.826e-03;SAPP=0.999,1.100e-07,1.400e-03;TLOD=-3.347e+00,-3.364e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4564,36,0:2.254e-04,2.161e-04:4600:2072,18,0:2492,18,0 +MT 10960 . A C, . base_quality;t_lod CONTQ=93;DP=4759;ECNT=18;MBQ=28,8,0;MFRL=336,348,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.347e+00,-3.364e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4564,36,0:2.254e-04,2.161e-04:4600:2072,18,0:2492,18,0 MT 10961 . C . . END=10963 GT:DP:MIN_DP:TLOD 0/0:4535:4523:-3.649e+00 MT 10964 . A . . END=10964 GT:DP:MIN_DP:TLOD 0/0:4565:4565:-3.413e+00 MT 10965 . C . . END=10971 GT:DP:MIN_DP:TLOD 0/0:4633:4586:-3.658e+00 -MT 10972 . A C, . base_quality;t_lod CONTQ=93;DP=4890;ECNT=18;MBQ=27,6,0;MFRL=337,328,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.020,0.030,0.028;SAPP=1.000,5.538e-10,4.438e-06;TLOD=-2.863e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4594,131,0:6.401e-04,2.139e-04:4725:2068,56,0:2526,75,0 +MT 10972 . A C, . base_quality;t_lod CONTQ=93;DP=4890;ECNT=18;MBQ=27,6,0;MFRL=337,328,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-2.863e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4594,131,0:6.401e-04,2.139e-04:4725:2068,56,0:2526,75,0 MT 10973 . C . . END=10977 GT:DP:MIN_DP:TLOD 0/0:4773:4655:-3.674e+00 -MT 10978 . A C, . base_quality;t_lod CONTQ=93;DP=4978;ECNT=18;MBQ=28,7,0;MFRL=337,357,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.015;SAPP=0.022,2.117e-04,0.978;TLOD=-3.300e+00,-3.382e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4750,74,0:2.543e-04,2.077e-04:4824:2125,38,0:2625,36,0 +MT 10978 . A C, . base_quality;t_lod CONTQ=93;DP=4978;ECNT=18;MBQ=28,7,0;MFRL=337,357,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.300e+00,-3.382e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4750,74,0:2.543e-04,2.077e-04:4824:2125,38,0:2625,36,0 MT 10979 . C . . END=10981 GT:DP:MIN_DP:TLOD 0/0:6092:5949:-3.659e+00 MT 10982 . C . . END=10982 GT:DP:MIN_DP:TLOD 0/0:6120:6120:-3.242e+00 MT 10983 . T . . END=10983 GT:DP:MIN_DP:TLOD 0/0:5822:5822:-1.452e+00 @@ -5043,37 +5041,37 @@ MT 12971 . C . . END=12971 GT:DP:MIN_DP:TLOD 0/0:7280:7280:-3.741e+00 MT 12972 . A . . END=12972 GT:DP:MIN_DP:TLOD 0/0:7245:7245:-2.801e+00 MT 12973 . C . . END=12982 GT:DP:MIN_DP:TLOD 0/0:7211:7082:-3.846e+00 MT 12983 . T . . END=12983 GT:DP:MIN_DP:TLOD 0/0:7190:7190:-3.466e+00 -MT 12984 . C A, . base_quality;t_lod CONTQ=93;DP=6793;ECNT=17;MBQ=29,14,0;MFRL=349,351,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.536e-04;SAPP=1.824e-04,7.776e-05,1.000;TLOD=-3.523e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6611,3,0:1.500e-04,1.497e-04:6614:3267,2,0:3344,1,0 +MT 12984 . C A, . base_quality;t_lod CONTQ=93;DP=6793;ECNT=17;MBQ=29,14,0;MFRL=349,351,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.523e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6611,3,0:1.500e-04,1.497e-04:6614:3267,2,0:3344,1,0 MT 12985 . C . . END=12996 GT:DP:MIN_DP:TLOD 0/0:6682:6641:-3.827e+00 -MT 12997 . G A, . base_quality;t_lod CONTQ=93;DP=6813;ECNT=17;MBQ=29,10,0;MFRL=350,616,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.516e-04;SAPP=7.300e-04,4.785e-05,0.999;TLOD=-3.496e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6640,3,0:1.594e-04,1.492e-04:6643:3263,3,0:3377,0,0 +MT 12997 . G A, . base_quality;t_lod CONTQ=93;DP=6813;ECNT=17;MBQ=29,10,0;MFRL=350,616,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.496e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6640,3,0:1.594e-04,1.492e-04:6643:3263,3,0:3377,0,0 MT 12998 . C . . END=12998 GT:DP:MIN_DP:TLOD 0/0:6687:6687:-3.806e+00 -MT 12999 . A C, . base_quality;t_lod CONTQ=93;DP=6814;ECNT=17;MBQ=29,4,0;MFRL=350,435,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.560e-03;SAPP=5.202e-03,8.263e-05,0.995;TLOD=-3.436e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6623,17,0:1.826e-04,1.493e-04:6640:3261,7,0:3362,10,0 +MT 12999 . A C, . base_quality;t_lod CONTQ=93;DP=6814;ECNT=17;MBQ=29,4,0;MFRL=350,435,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.436e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6623,17,0:1.826e-04,1.493e-04:6640:3261,7,0:3362,10,0 MT 13000 . G . . END=13002 GT:DP:MIN_DP:TLOD 0/0:6667:6661:-3.806e+00 -MT 13003 . A C, . base_quality;t_lod CONTQ=93;DP=6819;ECNT=17;MBQ=29,5,0;MFRL=350,356,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.658e-03;SAPP=9.283e-04,8.496e-05,0.999;TLOD=-3.507e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6623,11,0:1.558e-04,1.492e-04:6634:3256,4,0:3367,7,0 +MT 13003 . A C, . base_quality;t_lod CONTQ=93;DP=6819;ECNT=17;MBQ=29,5,0;MFRL=350,356,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.507e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6623,11,0:1.558e-04,1.492e-04:6634:3256,4,0:3367,7,0 MT 13004 . A . . END=13004 GT:DP:MIN_DP:TLOD 0/0:6685:6685:-3.708e+00 -MT 13005 . A C, . base_quality;t_lod CONTQ=93;DP=6823;ECNT=17;MBQ=29,6,0;MFRL=351,401,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.910e-03;SAPP=0.069,7.129e-05,0.930;TLOD=-3.442e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6623,26,0:1.810e-04,1.493e-04:6649:3250,10,0:3373,16,0 +MT 13005 . A C, . base_quality;t_lod CONTQ=93;DP=6823;ECNT=17;MBQ=29,6,0;MFRL=351,401,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.442e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6623,26,0:1.810e-04,1.493e-04:6649:3250,10,0:3373,16,0 MT 13006 . T . . END=13013 GT:DP:MIN_DP:TLOD 0/0:6685:6643:-3.827e+00 -MT 13014 . A C, . base_quality;t_lod CONTQ=93;DP=6838;ECNT=17;MBQ=29,6,0;MFRL=350,456,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.271e-03;SAPP=2.141e-04,5.617e-04,0.999;TLOD=-3.353e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6605,35,0:2.246e-04,1.496e-04:6640:3226,19,0:3379,16,0 -MT 13015 . T C, . base_quality;t_lod CONTQ=93;DP=6838;ECNT=17;MBQ=29,7,0;MFRL=351,487,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.319e-03;SAPP=3.428e-04,2.039e-04,0.999;TLOD=-3.517e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6607,22,0:1.519e-04,1.496e-04:6629:3223,8,0:3384,14,0 +MT 13014 . A C, . base_quality;t_lod CONTQ=93;DP=6838;ECNT=17;MBQ=29,6,0;MFRL=350,456,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.353e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6605,35,0:2.246e-04,1.496e-04:6640:3226,19,0:3379,16,0 +MT 13015 . T C, . base_quality;t_lod CONTQ=93;DP=6838;ECNT=17;MBQ=29,7,0;MFRL=351,487,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6607,22,0:1.519e-04,1.496e-04:6629:3223,8,0:3384,14,0 MT 13016 . T . . END=13019 GT:DP:MIN_DP:TLOD 0/0:6589:6586:-3.820e+00 -MT 13020 . T C, . PASS CONTQ=93;DP=6830;ECNT=17;MBQ=28,29,0;MFRL=296,352,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.024,0.022,0.953;TLOD=21958.04,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:22,6625,0:0.998,1.490e-04:6647:8,3223,0:14,3402,0 +MT 13020 . T C, . PASS CONTQ=93;DP=6830;ECNT=17;MBQ=28,29,0;MFRL=296,352,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=21958.04,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:22,6625,0:0.998,1.490e-04:6647:8,3223,0:14,3402,0 MT 13021 . C . . END=13024 GT:DP:MIN_DP:TLOD 0/0:6654:6638:-3.821e+00 -MT 13025 . A AACCCTGACT, . base_quality;contamination;t_lod CONTQ=1;DP=6805;ECNT=17;MBQ=29,0,0;MFRL=351,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.655e-05,4.934e-05,1.000;TLOD=-3.524e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6579,0,0:1.496e-04,1.496e-04:6579:3183,0,0:3396,0,0 +MT 13025 . A AACCCTGACT, . base_quality;contamination;t_lod CONTQ=1;DP=6805;ECNT=17;MBQ=29,0,0;MFRL=351,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.524e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6579,0,0:1.496e-04,1.496e-04:6579:3183,0,0:3396,0,0 MT 13026 . C . . END=13026 GT:DP:MIN_DP:TLOD 0/0:6660:6660:-3.796e+00 -MT 13027 . C A, . base_quality;t_lod CONTQ=93;DP=6806;ECNT=17;MBQ=29,15,0;MFRL=352,467,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.207e-03;SAPP=1.772e-04,2.019e-04,1.000;TLOD=-3.514e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6618,8,0:1.533e-04,1.494e-04:6626:3204,3,0:3414,5,0 +MT 13027 . C A, . base_quality;t_lod CONTQ=93;DP=6806;ECNT=17;MBQ=29,15,0;MFRL=352,467,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.514e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6618,8,0:1.533e-04,1.494e-04:6626:3204,3,0:3414,5,0 MT 13028 . C . . END=13033 GT:DP:MIN_DP:TLOD 0/0:6619:6518:-3.820e+00 -MT 13034 . T C, . base_quality;t_lod CONTQ=93;DP=6791;ECNT=17;MBQ=28,6,0;MFRL=352,344,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=0.011,1.492e-04,0.989;TLOD=-3.281e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6535,71,0:2.653e-04,1.512e-04:6606:3175,25,0:3360,46,0 +MT 13034 . T C, . base_quality;t_lod CONTQ=93;DP=6791;ECNT=17;MBQ=28,6,0;MFRL=352,344,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.281e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6535,71,0:2.653e-04,1.512e-04:6606:3175,25,0:3360,46,0 MT 13035 . C . . END=13035 GT:DP:MIN_DP:TLOD 0/0:6652:6652:-3.799e+00 -MT 13036 . C A, . t_lod CONTQ=93;DP=6782;ECNT=17;MBQ=29,21,0;MFRL=352,443,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.208e-03;SAPP=7.692e-04,8.344e-05,0.999;TLOD=-3.216e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6615,8,0:2.971e-04,1.497e-04:6623:3203,0,0:3412,8,0 -MT 13037 . C A, . base_quality;t_lod CONTQ=93;DP=6773;ECNT=17;MBQ=29,12,0;MFRL=352,273,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.361e-03;SAPP=2.287e-04,1.575e-04,1.000;TLOD=-3.164e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6604,9,0:3.083e-04,1.499e-04:6613:3190,2,0:3414,7,0 +MT 13036 . C A, . t_lod CONTQ=93;DP=6782;ECNT=17;MBQ=29,21,0;MFRL=352,443,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.216e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6615,8,0:2.971e-04,1.497e-04:6623:3203,0,0:3412,8,0 +MT 13037 . C A, . base_quality;t_lod CONTQ=93;DP=6773;ECNT=17;MBQ=29,12,0;MFRL=352,273,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.164e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6604,9,0:3.083e-04,1.499e-04:6613:3190,2,0:3414,7,0 MT 13038 . C . . END=13048 GT:DP:MIN_DP:TLOD 0/0:6614:6575:-3.820e+00 -MT 13049 . A C, . base_quality;t_lod CONTQ=93;DP=6722;ECNT=17;MBQ=29,7,0;MFRL=353,344,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.056e-03;SAPP=9.217e-04,1.254e-04,0.999;TLOD=-3.510e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6524,20,0:1.546e-04,1.517e-04:6544:3126,6,0:3398,14,0 +MT 13049 . A C, . base_quality;t_lod CONTQ=93;DP=6722;ECNT=17;MBQ=29,7,0;MFRL=353,344,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6524,20,0:1.546e-04,1.517e-04:6544:3126,6,0:3398,14,0 MT 13050 . A . . END=13050 GT:DP:MIN_DP:TLOD 0/0:6581:6581:-3.771e+00 -MT 13051 . G T, . base_quality;t_lod CONTQ=93;DP=6716;ECNT=17;MBQ=29,11,0;MFRL=352,379,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.069e-03;SAPP=2.260e-04,1.464e-04,1.000;TLOD=-3.516e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6541,7,0:1.523e-04,1.516e-04:6548:3131,5,0:3410,2,0 +MT 13051 . G T, . base_quality;t_lod CONTQ=93;DP=6716;ECNT=17;MBQ=29,11,0;MFRL=352,379,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6541,7,0:1.523e-04,1.516e-04:6548:3131,5,0:3410,2,0 MT 13052 . G . . END=13052 GT:DP:MIN_DP:TLOD 0/0:6515:6515:-3.668e+00 -MT 13053 . C A, . base_quality;t_lod CONTQ=93;DP=6709;ECNT=17;MBQ=29,17,0;MFRL=352,384,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.109e-04;SAPP=1.119e-04,1.247e-04,1.000;TLOD=-3.488e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6544,4,0:1.626e-04,1.514e-04:6548:3133,2,0:3411,2,0 +MT 13053 . C A, . base_quality;t_lod CONTQ=93;DP=6709;ECNT=17;MBQ=29,17,0;MFRL=352,384,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.488e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6544,4,0:1.626e-04,1.514e-04:6548:3133,2,0:3411,2,0 MT 13054 . C . . END=13056 GT:DP:MIN_DP:TLOD 0/0:6602:6591:-3.802e+00 -MT 13057 . A C, . base_quality;t_lod CONTQ=93;DP=6700;ECNT=17;MBQ=28,5,0;MFRL=351,386,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=6.436e-04,3.551e-04,0.999;TLOD=-3.156e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6457,69,0:3.651e-04,1.530e-04:6526:3076,35,0:3381,34,0 +MT 13057 . A C, . base_quality;t_lod CONTQ=93;DP=6700;ECNT=17;MBQ=28,5,0;MFRL=351,386,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.156e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6457,69,0:3.651e-04,1.530e-04:6526:3076,35,0:3381,34,0 MT 13058 . C . . END=13061 GT:DP:MIN_DP:TLOD 0/0:7266:7164:-3.819e+00 MT 13062 . A . . END=13062 GT:DP:MIN_DP:TLOD 0/0:7156:7156:0.038 MT 13063 . G . . END=13063 GT:DP:MIN_DP:TLOD 0/0:7052:7052:-3.598e+00 @@ -5115,36 +5113,36 @@ MT 13170 . A . . END=13185 GT:DP:MIN_DP:TLOD 0/0:7204:7127:-3.842e+00 MT 13186 . A . . END=13188 GT:DP:MIN_DP:TLOD 0/0:7257:7252:-3.475e+00 MT 13189 . A . . END=13189 GT:DP:MIN_DP:TLOD 0/0:7250:7250:-1.963e+00 MT 13190 . C . . END=13203 GT:DP:MIN_DP:TLOD 0/0:7264:7198:-3.853e+00 -MT 13204 . G T, . base_quality;t_lod CONTQ=93;DP=6965;ECNT=17;MBQ=29,10,0;MFRL=349,359,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.896e-04;SAPP=7.003e-05,2.564e-04,1.000;TLOD=-3.444e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6780,4,0:1.778e-04,1.461e-04:6784:3325,4,0:3455,0,0 +MT 13204 . G T, . base_quality;t_lod CONTQ=93;DP=6965;ECNT=17;MBQ=29,10,0;MFRL=349,359,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.444e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6780,4,0:1.778e-04,1.461e-04:6784:3325,4,0:3455,0,0 MT 13205 . T . . END=13209 GT:DP:MIN_DP:TLOD 0/0:6800:6730:-3.832e+00 -MT 13210 . G T, . base_quality;t_lod CONTQ=93;DP=6955;ECNT=17;MBQ=25,14,0;MFRL=348,387,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.920e-03;SAPP=1.311e-04,3.772e-04,0.999;TLOD=-3.148e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6758,13,0:3.328e-04,1.466e-04:6771:3300,11,0:3458,2,0 +MT 13210 . G T, . base_quality;t_lod CONTQ=93;DP=6955;ECNT=17;MBQ=25,14,0;MFRL=348,387,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.148e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6758,13,0:3.328e-04,1.466e-04:6771:3300,11,0:3458,2,0 MT 13211 . C . . END=13211 GT:DP:MIN_DP:TLOD 0/0:6805:6805:-3.765e+00 -MT 13212 . C T, . base_quality;t_lod CONTQ=93;DP=6961;ECNT=17;MBQ=29,19,0;MFRL=348,433,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.377e-04;SAPP=5.291e-04,6.212e-05,0.999;TLOD=-3.327e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6773,5,0:2.278e-04,1.461e-04:6778:3320,3,0:3453,2,0 +MT 13212 . C T, . base_quality;t_lod CONTQ=93;DP=6961;ECNT=17;MBQ=29,19,0;MFRL=348,433,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.327e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6773,5,0:2.278e-04,1.461e-04:6778:3320,3,0:3453,2,0 MT 13213 . C . . END=13215 GT:DP:MIN_DP:TLOD 0/0:6801:6800:-3.820e+00 -MT 13216 . A C, . base_quality;t_lod CONTQ=93;DP=6973;ECNT=17;MBQ=29,9,0;MFRL=347,369,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.097e-03;SAPP=1.359e-04,6.678e-04,0.999;TLOD=-3.452e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6760,21,0:1.778e-04,1.462e-04:6781:3317,8,0:3443,13,0 +MT 13216 . A C, . base_quality;t_lod CONTQ=93;DP=6973;ECNT=17;MBQ=29,9,0;MFRL=347,369,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.452e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6760,21,0:1.778e-04,1.462e-04:6781:3317,8,0:3443,13,0 MT 13217 . C . . END=13221 GT:DP:MIN_DP:TLOD 0/0:6841:6822:-3.834e+00 -MT 13222 . A C, . base_quality;t_lod CONTQ=93;DP=6987;ECNT=17;MBQ=29,8,0;MFRL=347,398,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.710e-03;SAPP=1.241e-04,2.779e-03,0.997;TLOD=-3.525e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6762,32,0:1.495e-04,1.462e-04:6794:3305,22,0:3457,10,0 -MT 13223 . A C, . base_quality;t_lod CONTQ=93;DP=6996;ECNT=17;MBQ=29,8,0;MFRL=347,388,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.128e-03;SAPP=1.696e-04,1.016e-03,0.999;TLOD=-3.515e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6755,28,0:1.530e-04,1.463e-04:6783:3295,17,0:3460,11,0 +MT 13222 . A C, . base_quality;t_lod CONTQ=93;DP=6987;ECNT=17;MBQ=29,8,0;MFRL=347,398,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.525e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6762,32,0:1.495e-04,1.462e-04:6794:3305,22,0:3457,10,0 +MT 13223 . A C, . base_quality;t_lod CONTQ=93;DP=6996;ECNT=17;MBQ=29,8,0;MFRL=347,388,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6755,28,0:1.530e-04,1.463e-04:6783:3295,17,0:3460,11,0 MT 13224 . T . . END=13224 GT:DP:MIN_DP:TLOD 0/0:6829:6829:-3.790e+00 -MT 13225 . G C, . base_quality;t_lod CONTQ=93;DP=6992;ECNT=17;MBQ=29,5,0;MFRL=348,317,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.824e-04;SAPP=3.035e-04,9.031e-05,1.000;TLOD=-3.534e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6794,6,0:1.463e-04,1.457e-04:6800:3320,4,0:3474,2,0 +MT 13225 . G C, . base_quality;t_lod CONTQ=93;DP=6992;ECNT=17;MBQ=29,5,0;MFRL=348,317,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.534e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6794,6,0:1.463e-04,1.457e-04:6800:3320,4,0:3474,2,0 MT 13226 . A . . END=13226 GT:DP:MIN_DP:TLOD 0/0:6819:6819:-3.753e+00 -MT 13227 . C A, . base_quality;t_lod CONTQ=93;DP=6994;ECNT=17;MBQ=29,13,0;MFRL=348,320,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.799e-04;SAPP=9.220e-05,2.891e-04,1.000;TLOD=-3.500e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6813,6,0:1.579e-04,1.454e-04:6819:3324,6,0:3489,0,0 -MT 13228 . A C, . base_quality;t_lod CONTQ=93;DP=6989;ECNT=17;MBQ=29,8,0;MFRL=348,407,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.056e-03;SAPP=1.183e-04,5.903e-04,0.999;TLOD=-3.531e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6795,14,0:1.471e-04,1.457e-04:6809:3313,5,0:3482,9,0 +MT 13227 . C A, . base_quality;t_lod CONTQ=93;DP=6994;ECNT=17;MBQ=29,13,0;MFRL=348,320,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.500e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6813,6,0:1.579e-04,1.454e-04:6819:3324,6,0:3489,0,0 +MT 13228 . A C, . base_quality;t_lod CONTQ=93;DP=6989;ECNT=17;MBQ=29,8,0;MFRL=348,407,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.531e+00,-3.535e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6795,14,0:1.471e-04,1.457e-04:6809:3313,5,0:3482,9,0 MT 13229 . T . . END=13229 GT:DP:MIN_DP:TLOD 0/0:6776:6776:-3.618e+00 -MT 13230 . C A, . base_quality;t_lod CONTQ=93;DP=6997;ECNT=17;MBQ=29,10,0;MFRL=348,360,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.322e-03;SAPP=1.389e-03,7.096e-05,0.999;TLOD=-3.410e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6799,9,0:1.930e-04,1.455e-04:6808:3309,3,0:3490,6,0 +MT 13230 . C A, . base_quality;t_lod CONTQ=93;DP=6997;ECNT=17;MBQ=29,10,0;MFRL=348,360,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.410e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6799,9,0:1.930e-04,1.455e-04:6808:3309,3,0:3490,6,0 MT 13231 . A . . END=13233 GT:DP:MIN_DP:TLOD 0/0:6843:6837:-3.823e+00 -MT 13234 . A C, . base_quality;t_lod CONTQ=93;DP=7000;ECNT=17;MBQ=29,8,0;MFRL=348,342,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.277e-03;SAPP=1.145e-04,4.362e-03,0.996;TLOD=-3.501e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6786,36,0:1.579e-04,1.457e-04:6822:3300,20,0:3486,16,0 -MT 13235 . A C, . base_quality;t_lod CONTQ=93;DP=7003;ECNT=17;MBQ=29,8,0;MFRL=348,354,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.690e-03;SAPP=1.211e-04,3.064e-03,0.997;TLOD=-3.132e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6791,32,0:3.319e-04,1.456e-04:6823:3298,14,0:3493,18,0 +MT 13234 . A C, . base_quality;t_lod CONTQ=93;DP=7000;ECNT=17;MBQ=29,8,0;MFRL=348,342,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.501e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6786,36,0:1.579e-04,1.457e-04:6822:3300,20,0:3486,16,0 +MT 13235 . A C, . base_quality;t_lod CONTQ=93;DP=7003;ECNT=17;MBQ=29,8,0;MFRL=348,354,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.132e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6791,32,0:3.319e-04,1.456e-04:6823:3298,14,0:3493,18,0 MT 13236 . A . . END=13236 GT:DP:MIN_DP:TLOD 0/0:6847:6847:-3.696e+00 -MT 13237 . A C, . base_quality;t_lod CONTQ=93;DP=7009;ECNT=17;MBQ=29,8,0;MFRL=348,425,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.054e-03;SAPP=7.394e-05,3.916e-03,0.996;TLOD=-3.529e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6802,14,0:1.480e-04,1.454e-04:6816:3284,9,0:3518,5,0 +MT 13237 . A C, . base_quality;t_lod CONTQ=93;DP=7009;ECNT=17;MBQ=29,8,0;MFRL=348,425,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.529e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6802,14,0:1.480e-04,1.454e-04:6816:3284,9,0:3518,5,0 MT 13238 . T . . END=13244 GT:DP:MIN_DP:TLOD 0/0:6792:6706:-3.835e+00 -MT 13245 . C A, . base_quality;t_lod CONTQ=93;DP=6957;ECNT=17;MBQ=29,13,0;MFRL=348,559,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.328e-03;SAPP=5.315e-03,5.683e-05,0.995;TLOD=-3.510e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6770,9,0:1.548e-04,1.462e-04:6779:3282,2,0:3488,7,0 +MT 13245 . C A, . base_quality;t_lod CONTQ=93;DP=6957;ECNT=17;MBQ=29,13,0;MFRL=348,559,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6770,9,0:1.548e-04,1.462e-04:6779:3282,2,0:3488,7,0 MT 13246 . T . . END=13246 GT:DP:MIN_DP:TLOD 0/0:6804:6804:-3.691e+00 -MT 13247 . T A,G, . base_quality;t_lod CONTQ=93;DP=6945;ECNT=17;MBQ=29,12,8,0;MFRL=348,436,393,0;MMQ=60,60,60,0;MPOS=16,39,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.369e-03;SAPP=8.369e-05,3.813e-03,0.996;TLOD=-3.332e+00,-3.219e+00,-3.356e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6738,8,16,0:1.554e-04,1.997e-04,1.470e-04:6762:3252,3,10,0:3486,5,6,0 +MT 13247 . T A,G, . base_quality;t_lod CONTQ=93;DP=6945;ECNT=17;MBQ=29,12,8,0;MFRL=348,436,393,0;MMQ=60,60,60,0;MPOS=16,39,0;POPAF=7.30,7.30,7.30;TLOD=-3.332e+00,-3.219e+00,-3.356e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6738,8,16,0:1.554e-04,1.997e-04,1.470e-04:6762:3252,3,10,0:3486,5,6,0 MT 13248 . C . . END=13262 GT:DP:MIN_DP:TLOD 0/0:6794:6739:-3.831e+00 -MT 13263 . A C, . base_quality;t_lod CONTQ=93;DP=6897;ECNT=17;MBQ=29,7,0;MFRL=348,408,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.717e-03;SAPP=3.279e-04,2.659e-04,0.999;TLOD=-3.419e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6700,25,0:1.919e-04,1.476e-04:6725:3218,8,0:3482,17,0 +MT 13263 . A C, . base_quality;t_lod CONTQ=93;DP=6897;ECNT=17;MBQ=29,7,0;MFRL=348,408,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.419e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6700,25,0:1.919e-04,1.476e-04:6725:3218,8,0:3482,17,0 MT 13264 . C . . END=13268 GT:DP:MIN_DP:TLOD 0/0:6745:6711:-3.822e+00 -MT 13269 . A C, . base_quality;t_lod CONTQ=93;DP=6874;ECNT=17;MBQ=28,6,0;MFRL=347,506,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.533e-03;SAPP=5.180e-03,1.184e-04,0.995;TLOD=-3.479e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6650,37,0:1.664e-04,1.487e-04:6687:3197,13,0:3453,24,0 +MT 13269 . A C, . base_quality;t_lod CONTQ=93;DP=6874;ECNT=17;MBQ=28,6,0;MFRL=347,506,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.479e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6650,37,0:1.664e-04,1.487e-04:6687:3197,13,0:3453,24,0 MT 13270 . C . . END=13282 GT:DP:MIN_DP:TLOD 0/0:7250:7194:-3.848e+00 MT 13283 . C . . END=13283 GT:DP:MIN_DP:TLOD 0/0:7255:7255:-3.380e+00 MT 13284 . A . . END=13287 GT:DP:MIN_DP:TLOD 0/0:7274:7257:-3.841e+00 @@ -5296,60 +5294,60 @@ MT 13721 . T . . END=13721 GT:DP:MIN_DP:TLOD 0/0:6996:6996:-2.816e+00 MT 13722 . A . . END=13722 GT:DP:MIN_DP:TLOD 0/0:6984:6984:-3.603e+00 MT 13723 . T . . END=13723 GT:DP:MIN_DP:TLOD 0/0:6998:6998:-3.427e+00 MT 13724 . T . . END=13731 GT:DP:MIN_DP:TLOD 0/0:6942:6807:-3.804e+00 -MT 13732 . T G, . base_quality;t_lod CONTQ=93;DP=4628;ECNT=27;MBQ=29,5,0;MFRL=336,305,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.008e-03;SAPP=3.832e-04,2.618e-04,0.999;TLOD=-3.351e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4473,9,0:2.230e-04,2.209e-04:4482:2087,6,0:2386,3,0 +MT 13732 . T G, . base_quality;t_lod CONTQ=93;DP=4628;ECNT=27;MBQ=29,5,0;MFRL=336,305,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.351e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4473,9,0:2.230e-04,2.209e-04:4482:2087,6,0:2386,3,0 MT 13733 . T . . END=13735 GT:DP:MIN_DP:TLOD 0/0:4472:4458:-3.654e+00 MT 13736 . T . . END=13736 GT:DP:MIN_DP:TLOD 0/0:4492:4492:-3.453e+00 MT 13737 . C . . END=13737 GT:DP:MIN_DP:TLOD 0/0:4500:4500:-3.649e+00 -MT 13738 . A C, . base_quality;t_lod CONTQ=93;DP=4644;ECNT=27;MBQ=29,8,0;MFRL=336,367,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.226e-03;SAPP=0.442,3.340e-05,0.558;TLOD=-3.340e+00,-3.356e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4483,10,0:2.288e-04,2.201e-04:4493:2070,4,0:2413,6,0 +MT 13738 . A C, . base_quality;t_lod CONTQ=93;DP=4644;ECNT=27;MBQ=29,8,0;MFRL=336,367,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.340e+00,-3.356e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4483,10,0:2.288e-04,2.201e-04:4493:2070,4,0:2413,6,0 MT 13739 . T . . END=13739 GT:DP:MIN_DP:TLOD 0/0:4491:4491:-3.631e+00 -MT 13740 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4652;ECNT=27;MBQ=29,0,0;MFRL=336,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=1.466e-04,4.599e-05,1.000;TLOD=-3.357e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4497,0,0:2.196e-04,2.196e-04:4497:2067,0,0:2430,0,0 +MT 13740 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4652;ECNT=27;MBQ=29,0,0;MFRL=336,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.357e+00,-3.357e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4497,0,0:2.196e-04,2.196e-04:4497:2067,0,0:2430,0,0 MT 13741 . A . . END=13742 GT:DP:MIN_DP:TLOD 0/0:4489:4486:-3.652e+00 MT 13743 . T . . END=13743 GT:DP:MIN_DP:TLOD 0/0:4490:4490:-3.322e+00 -MT 13744 . A C, . base_quality;t_lod CONTQ=93;DP=4676;ECNT=27;MBQ=29,9,0;MFRL=337,373,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.753e-03;SAPP=7.405e-04,2.621e-04,0.999;TLOD=-3.247e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4513,17,0:2.841e-04,2.188e-04:4530:2050,12,0:2463,5,0 +MT 13744 . A C, . base_quality;t_lod CONTQ=93;DP=4676;ECNT=27;MBQ=29,9,0;MFRL=337,373,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.247e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4513,17,0:2.841e-04,2.188e-04:4530:2050,12,0:2463,5,0 MT 13745 . A . . END=13749 GT:DP:MIN_DP:TLOD 0/0:4514:4490:-3.658e+00 MT 13750 . A . . END=13750 GT:DP:MIN_DP:TLOD 0/0:4475:4475:-2.376e+00 -MT 13751 . T C, . base_quality;t_lod CONTQ=93;DP=4720;ECNT=27;MBQ=28,7,0;MFRL=336,395,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.270e-03;SAPP=0.031,1.171e-04,0.969;TLOD=-3.348e+00,-3.360e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4530,24,0:2.248e-04,2.182e-04:4554:2015,13,0:2515,11,0 -MT 13752 . T C, . base_quality;t_lod CONTQ=93;DP=4713;ECNT=27;MBQ=28,7,0;MFRL=337,309,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.827e-03;SAPP=2.387e-04,1.648e-03,0.998;TLOD=-3.305e+00,-3.360e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4536,22,0:2.484e-04,2.183e-04:4558:2024,13,0:2512,9,0 +MT 13751 . T C, . base_quality;t_lod CONTQ=93;DP=4720;ECNT=27;MBQ=28,7,0;MFRL=336,395,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.348e+00,-3.360e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4530,24,0:2.248e-04,2.182e-04:4554:2015,13,0:2515,11,0 +MT 13752 . T C, . base_quality;t_lod CONTQ=93;DP=4713;ECNT=27;MBQ=28,7,0;MFRL=337,309,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.305e+00,-3.360e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4536,22,0:2.484e-04,2.183e-04:4558:2024,13,0:2512,9,0 MT 13753 . T . . END=13755 GT:DP:MIN_DP:TLOD 0/0:4557:4401:-3.657e+00 MT 13756 . C . . END=13756 GT:DP:MIN_DP:TLOD 0/0:4582:4582:-2.801e+00 MT 13757 . C . . END=13758 GT:DP:MIN_DP:TLOD 0/0:4590:4583:-3.638e+00 MT 13759 . G . . END=13759 GT:DP:MIN_DP:TLOD 0/0:4396:4396:-3.295e+00 MT 13760 . C . . END=13760 GT:DP:MIN_DP:TLOD 0/0:4548:4548:-3.610e+00 -MT 13761 . A C, . base_quality;t_lod CONTQ=93;DP=4790;ECNT=27;MBQ=28,4,0;MFRL=337,350,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.015;SAPP=1.000,3.397e-12,4.030e-08;TLOD=-2.927e+00,-3.365e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4554,68,0:5.777e-04,2.159e-04:4622:2021,33,0:2533,35,0 -MT 13762 . T C, . base_quality;t_lod CONTQ=93;DP=4810;ECNT=27;MBQ=27,4,0;MFRL=336,348,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.016;SAPP=1.000,6.342e-09,5.861e-05;TLOD=-3.077e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4524,75,0:4.229e-04,2.172e-04:4599:2000,38,0:2524,37,0 -MT 13763 . C A, . base_quality;t_lod CONTQ=93;DP=4844;ECNT=27;MBQ=29,7,0;MFRL=337,239,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.061e-03;SAPP=7.810e-03,5.906e-05,0.992;TLOD=-3.355e+00,-3.376e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4706,5,0:2.211e-04,2.104e-04:4711:2096,2,0:2610,3,0 +MT 13761 . A C, . base_quality;t_lod CONTQ=93;DP=4790;ECNT=27;MBQ=28,4,0;MFRL=337,350,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-2.927e+00,-3.365e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4554,68,0:5.777e-04,2.159e-04:4622:2021,33,0:2533,35,0 +MT 13762 . T C, . base_quality;t_lod CONTQ=93;DP=4810;ECNT=27;MBQ=27,4,0;MFRL=336,348,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.077e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4524,75,0:4.229e-04,2.172e-04:4599:2000,38,0:2524,37,0 +MT 13763 . C A, . base_quality;t_lod CONTQ=93;DP=4844;ECNT=27;MBQ=29,7,0;MFRL=337,239,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.355e+00,-3.376e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4706,5,0:2.211e-04,2.104e-04:4711:2096,2,0:2610,3,0 MT 13764 . C . . END=13764 GT:DP:MIN_DP:TLOD 0/0:4611:4611:-3.649e+00 MT 13765 . C . . END=13767 GT:DP:MIN_DP:TLOD 0/0:4637:4632:-3.404e+00 -MT 13768 . T C, . base_quality;t_lod CONTQ=93;DP=4895;ECNT=27;MBQ=29,3,0;MFRL=337,352,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.017;SAPP=1.00,0.00,0.00;TLOD=-3.111e+00,-3.372e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4609,81,0:3.961e-04,2.125e-04:4690:2028,46,0:2581,35,0 -MT 13769 . T C, . base_quality;t_lod CONTQ=93;DP=4893;ECNT=27;MBQ=28,6,0;MFRL=337,381,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.791e-03;SAPP=0.793,1.919e-05,0.207;TLOD=-3.164e+00,-3.376e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4680,32,0:3.228e-04,2.106e-04:4712:2067,16,0:2613,16,0 +MT 13768 . T C, . base_quality;t_lod CONTQ=93;DP=4895;ECNT=27;MBQ=29,3,0;MFRL=337,352,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.111e+00,-3.372e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4609,81,0:3.961e-04,2.125e-04:4690:2028,46,0:2581,35,0 +MT 13769 . T C, . base_quality;t_lod CONTQ=93;DP=4893;ECNT=27;MBQ=28,6,0;MFRL=337,381,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.164e+00,-3.376e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4680,32,0:3.228e-04,2.106e-04:4712:2067,16,0:2613,16,0 MT 13770 . C . . END=13770 GT:DP:MIN_DP:TLOD 0/0:4608:4608:-3.585e+00 MT 13771 . C . . END=13771 GT:DP:MIN_DP:TLOD 0/0:4634:4634:-3.340e+00 MT 13772 . A . . END=13772 GT:DP:MIN_DP:TLOD 0/0:4606:4606:-3.519e+00 -MT 13773 . A C, . base_quality;t_lod CONTQ=93;DP=4919;ECNT=27;MBQ=28,7,0;MFRL=337,329,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.386e-03;SAPP=0.311,7.490e-05,0.689;TLOD=-3.347e+00,-3.378e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4704,35,0:2.256e-04,2.095e-04:4739:2054,22,0:2650,13,0 +MT 13773 . A C, . base_quality;t_lod CONTQ=93;DP=4919;ECNT=27;MBQ=28,7,0;MFRL=337,329,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.347e+00,-3.378e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4704,35,0:2.256e-04,2.095e-04:4739:2054,22,0:2650,13,0 MT 13774 . A . . END=13776 GT:DP:MIN_DP:TLOD 0/0:4621:4614:-3.661e+00 -MT 13777 . A C, . base_quality;t_lod CONTQ=93;DP=4933;ECNT=27;MBQ=28,7,0;MFRL=337,414,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.471e-03;SAPP=2.161e-03,1.883e-04,0.998;TLOD=-3.368e+00,-3.379e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4726,26,0:2.146e-04,2.088e-04:4752:2062,13,0:2664,13,0 +MT 13777 . A C, . base_quality;t_lod CONTQ=93;DP=4933;ECNT=27;MBQ=28,7,0;MFRL=337,414,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.368e+00,-3.379e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4726,26,0:2.146e-04,2.088e-04:4752:2062,13,0:2664,13,0 MT 13778 . C . . END=13778 GT:DP:MIN_DP:TLOD 0/0:4616:4616:-3.666e+00 -MT 13779 . A C, . base_quality;t_lod CONTQ=93;DP=4930;ECNT=27;MBQ=28,8,0;MFRL=337,360,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.798e-03;SAPP=4.858e-03,2.125e-04,0.995;TLOD=-3.361e+00,-3.379e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4732,42,0:2.181e-04,2.090e-04:4774:2059,26,0:2673,16,0 -MT 13780 . A C, . base_quality;t_lod CONTQ=93;DP=4928;ECNT=27;MBQ=28,7,0;MFRL=337,356,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=1.302e-04,0.263,0.737;TLOD=-3.184e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4719,68,0:3.261e-04,2.098e-04:4787:2046,41,0:2673,27,0 +MT 13779 . A C, . base_quality;t_lod CONTQ=93;DP=4930;ECNT=27;MBQ=28,8,0;MFRL=337,360,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.361e+00,-3.379e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4732,42,0:2.181e-04,2.090e-04:4774:2059,26,0:2673,16,0 +MT 13780 . A C, . base_quality;t_lod CONTQ=93;DP=4928;ECNT=27;MBQ=28,7,0;MFRL=337,356,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.184e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4719,68,0:3.261e-04,2.098e-04:4787:2046,41,0:2673,27,0 MT 13781 . T . . END=13781 GT:DP:MIN_DP:TLOD 0/0:4618:4618:-3.274e+00 MT 13782 . C . . END=13783 GT:DP:MIN_DP:TLOD 0/0:4760:4741:-3.673e+00 -MT 13784 . C A, . base_quality;t_lod CONTQ=93;DP=4966;ECNT=27;MBQ=29,15,0;MFRL=337,443,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.271e-04;SAPP=1.578e-03,6.513e-05,0.998;TLOD=-3.198e+00,-3.388e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4832,4,0:2.991e-04,2.046e-04:4836:2116,1,0:2716,3,0 -MT 13785 . C A, . base_quality;t_lod CONTQ=93;DP=4980;ECNT=27;MBQ=29,12,0;MFRL=336,418,0;MMQ=60,60,0;MPOS=57,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.445e-03;SAPP=0.028,5.615e-05,0.972;TLOD=-3.202e+00,-3.389e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4838,7,0:3.031e-04,2.043e-04:4845:2114,5,0:2724,2,0 +MT 13784 . C A, . base_quality;t_lod CONTQ=93;DP=4966;ECNT=27;MBQ=29,15,0;MFRL=337,443,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.198e+00,-3.388e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4832,4,0:2.991e-04,2.046e-04:4836:2116,1,0:2716,3,0 +MT 13785 . C A, . base_quality;t_lod CONTQ=93;DP=4980;ECNT=27;MBQ=29,12,0;MFRL=336,418,0;MMQ=60,60,0;MPOS=57,0;POPAF=7.30,7.30;TLOD=-3.202e+00,-3.389e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4838,7,0:3.031e-04,2.043e-04:4845:2114,5,0:2724,2,0 MT 13786 . C . . END=13786 GT:DP:MIN_DP:TLOD 0/0:4823:4823:-2.956e+00 -MT 13787 . T C, . base_quality;t_lod CONTQ=93;DP=5002;ECNT=27;MBQ=28,4,0;MFRL=337,330,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=1.00,0.00,1.384e-17;TLOD=-3.347e+00,-3.386e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4790,53,0:2.258e-04,2.058e-04:4843:2090,23,0:2700,30,0 -MT 13788 . C A, . base_quality;t_lod CONTQ=93;DP=5011;ECNT=27;MBQ=29,13,0;MFRL=337,318,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.175e-04;SAPP=3.801e-04,1.002e-04,1.000;TLOD=-3.330e+00,-3.392e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4889,4,0:2.332e-04,2.026e-04:4893:2126,1,0:2763,3,0 +MT 13787 . T C, . base_quality;t_lod CONTQ=93;DP=5002;ECNT=27;MBQ=28,4,0;MFRL=337,330,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.347e+00,-3.386e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4790,53,0:2.258e-04,2.058e-04:4843:2090,23,0:2700,30,0 +MT 13788 . C A, . base_quality;t_lod CONTQ=93;DP=5011;ECNT=27;MBQ=29,13,0;MFRL=337,318,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.330e+00,-3.392e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4889,4,0:2.332e-04,2.026e-04:4893:2126,1,0:2763,3,0 MT 13789 . T . . END=13789 GT:DP:MIN_DP:TLOD 0/0:4825:4825:-3.564e+00 -MT 13790 . A C, . base_quality;t_lod CONTQ=93;DP=5042;ECNT=27;MBQ=28,7,0;MFRL=337,326,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.560e-03;SAPP=0.967,2.777e-06,0.033;TLOD=-3.270e+00,-3.390e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4857,37,0:2.652e-04,2.035e-04:4894:2113,20,0:2744,17,0 +MT 13790 . A C, . base_quality;t_lod CONTQ=93;DP=5042;ECNT=27;MBQ=28,7,0;MFRL=337,326,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.270e+00,-3.390e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4857,37,0:2.652e-04,2.035e-04:4894:2113,20,0:2744,17,0 MT 13791 . C . . END=13793 GT:DP:MIN_DP:TLOD 0/0:4907:4856:-3.690e+00 -MT 13794 . A C, . base_quality;t_lod CONTQ=93;DP=5108;ECNT=27;MBQ=29,9,0;MFRL=337,334,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.825e-03;SAPP=0.012,1.171e-04,0.988;TLOD=-3.206e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4950,24,0:3.078e-04,1.999e-04:4974:2146,10,0:2804,14,0 -MT 13795 . A C, . base_quality;t_lod CONTQ=93;DP=5132;ECNT=27;MBQ=28,8,0;MFRL=337,370,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.214e-03;SAPP=3.529e-04,4.442e-04,0.999;TLOD=-3.362e+00,-3.399e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4962,21,0:2.176e-04,1.996e-04:4983:2153,11,0:2809,10,0 -MT 13796 . A C, . base_quality;t_lod CONTQ=93;DP=5134;ECNT=27;MBQ=28,8,0;MFRL=337,364,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.197e-03;SAPP=1.286e-04,0.076,0.924;TLOD=-3.327e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4961,41,0:2.371e-04,1.999e-04:5002:2136,28,0:2825,13,0 -MT 13797 . A C, . base_quality;t_lod CONTQ=93;DP=5151;ECNT=27;MBQ=27,8,0;MFRL=337,350,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=6.085e-05,0.533,0.467;TLOD=-3.309e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4944,53,0:2.484e-04,2.002e-04:4997:2147,26,0:2797,27,0 +MT 13794 . A C, . base_quality;t_lod CONTQ=93;DP=5108;ECNT=27;MBQ=29,9,0;MFRL=337,334,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.206e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4950,24,0:3.078e-04,1.999e-04:4974:2146,10,0:2804,14,0 +MT 13795 . A C, . base_quality;t_lod CONTQ=93;DP=5132;ECNT=27;MBQ=28,8,0;MFRL=337,370,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-3.362e+00,-3.399e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4962,21,0:2.176e-04,1.996e-04:4983:2153,11,0:2809,10,0 +MT 13796 . A C, . base_quality;t_lod CONTQ=93;DP=5134;ECNT=27;MBQ=28,8,0;MFRL=337,364,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.327e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4961,41,0:2.371e-04,1.999e-04:5002:2136,28,0:2825,13,0 +MT 13797 . A C, . base_quality;t_lod CONTQ=93;DP=5151;ECNT=27;MBQ=27,8,0;MFRL=337,350,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.309e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4944,53,0:2.484e-04,2.002e-04:4997:2147,26,0:2797,27,0 MT 13798 . C . . END=13800 GT:DP:MIN_DP:TLOD 0/0:5032:4988:-3.697e+00 -MT 13801 . A C, . base_quality;t_lod CONTQ=93;DP=5226;ECNT=27;MBQ=28,8,0;MFRL=337,335,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.482e-03;SAPP=0.969,2.489e-06,0.031;TLOD=-3.312e+00,-3.407e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5041,38,0:2.447e-04,1.961e-04:5079:2190,24,0:2851,14,0 +MT 13801 . A C, . base_quality;t_lod CONTQ=93;DP=5226;ECNT=27;MBQ=28,8,0;MFRL=337,335,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.312e+00,-3.407e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5041,38,0:2.447e-04,1.961e-04:5079:2190,24,0:2851,14,0 MT 13802 . C . . END=13802 GT:DP:MIN_DP:TLOD 0/0:5061:5061:-3.704e+00 -MT 13803 . A G, . base_quality;t_lod CONTQ=93;DP=5253;ECNT=27;MBQ=29,17,0;MFRL=337,243,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.845e-04;SAPP=1.348e-04,2.169e-04,1.000;TLOD=-3.118e+00,-3.411e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5095,4,0:3.436e-04,1.942e-04:5099:2209,1,0:2886,3,0 -MT 13804 . G T, . base_quality;t_lod CONTQ=93;DP=5274;ECNT=27;MBQ=29,12,0;MFRL=337,338,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.810e-04;SAPP=2.058e-03,6.585e-05,0.998;TLOD=-3.408e+00,-3.411e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5092,5,0:1.953e-04,1.942e-04:5097:2207,3,0:2885,2,0 +MT 13803 . A G, . base_quality;t_lod CONTQ=93;DP=5253;ECNT=27;MBQ=29,17,0;MFRL=337,243,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.118e+00,-3.411e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5095,4,0:3.436e-04,1.942e-04:5099:2209,1,0:2886,3,0 +MT 13804 . G T, . base_quality;t_lod CONTQ=93;DP=5274;ECNT=27;MBQ=29,12,0;MFRL=337,338,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.408e+00,-3.411e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5092,5,0:1.953e-04,1.942e-04:5097:2207,3,0:2885,2,0 MT 13805 . C . . END=13805 GT:DP:MIN_DP:TLOD 0/0:6172:6172:-3.366e+00 MT 13806 . C . . END=13807 GT:DP:MIN_DP:TLOD 0/0:6252:6241:-3.712e+00 MT 13808 . T . . END=13808 GT:DP:MIN_DP:TLOD 0/0:6120:6120:-3.258e+00 @@ -5802,31 +5800,31 @@ MT 14852 . C . . END=14860 GT:DP:MIN_DP:TLOD 0/0:7201:7040:-3.806e+00 MT 14861 . G . . END=14861 GT:DP:MIN_DP:TLOD 0/0:7018:7018:-3.471e+00 MT 14862 . C . . END=14871 GT:DP:MIN_DP:TLOD 0/0:7197:7151:-3.856e+00 MT 14872 . C . . END=14872 GT:DP:MIN_DP:TLOD 0/0:7234:7234:-2.523e+00 -MT 14873 . C A, . base_quality;t_lod CONTQ=93;DP=6897;ECNT=12;MBQ=29,13,0;MFRL=347,504,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.460e-04;SAPP=1.677e-04,8.062e-05,1.000;TLOD=-3.440e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6724,3,0:1.791e-04,1.472e-04:6727:3348,0,0:3376,3,0 +MT 14873 . C A, . base_quality;t_lod CONTQ=93;DP=6897;ECNT=12;MBQ=29,13,0;MFRL=347,504,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.440e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6724,3,0:1.791e-04,1.472e-04:6727:3348,0,0:3376,3,0 MT 14874 . T . . END=14876 GT:DP:MIN_DP:TLOD 0/0:6785:6778:-3.830e+00 -MT 14877 . A C, . base_quality;t_lod CONTQ=93;DP=6920;ECNT=12;MBQ=29,7,0;MFRL=347,350,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.710e-03;SAPP=1.465e-04,9.372e-04,0.999;TLOD=-3.509e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6714,25,0:1.548e-04,1.474e-04:6739:3328,14,0:3386,11,0 +MT 14877 . A C, . base_quality;t_lod CONTQ=93;DP=6920;ECNT=12;MBQ=29,7,0;MFRL=347,350,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.531e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6714,25,0:1.548e-04,1.474e-04:6739:3328,14,0:3386,11,0 MT 14878 . A . . END=14878 GT:DP:MIN_DP:TLOD 0/0:6740:6740:-3.685e+00 -MT 14879 . A C, . base_quality;t_lod CONTQ=93;DP=6924;ECNT=12;MBQ=29,7,0;MFRL=347,399,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.093e-03;SAPP=1.367e-04,4.631e-03,0.995;TLOD=-3.463e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6688,41,0:1.731e-04,1.479e-04:6729:3298,22,0:3390,19,0 +MT 14879 . A C, . base_quality;t_lod CONTQ=93;DP=6924;ECNT=12;MBQ=29,7,0;MFRL=347,399,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.463e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6688,41,0:1.731e-04,1.479e-04:6729:3298,22,0:3390,19,0 MT 14880 . T . . END=14881 GT:DP:MIN_DP:TLOD 0/0:6771:6741:-3.829e+00 MT 14882 . A . . END=14882 GT:DP:MIN_DP:TLOD 0/0:6785:6785:-3.388e+00 MT 14883 . C . . END=14884 GT:DP:MIN_DP:TLOD 0/0:6818:6814:-3.826e+00 -MT 14885 . A C, . base_quality;t_lod CONTQ=93;DP=6941;ECNT=12;MBQ=29,7,0;MFRL=346,402,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.737e-03;SAPP=2.280e-04,5.398e-04,0.999;TLOD=-3.435e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6723,32,0:1.858e-04,1.470e-04:6755:3291,21,0:3432,11,0 -MT 14886 . C T, . base_quality;t_lod CONTQ=93;DP=6944;ECNT=12;MBQ=29,11,0;MFRL=346,409,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.915e-04;SAPP=1.080e-04,1.201e-04,1.000;TLOD=-3.532e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6759,4,0:1.468e-04,1.464e-04:6763:3316,0,0:3443,4,0 +MT 14885 . A C, . base_quality;t_lod CONTQ=93;DP=6941;ECNT=12;MBQ=29,7,0;MFRL=346,402,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.435e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6723,32,0:1.858e-04,1.470e-04:6755:3291,21,0:3432,11,0 +MT 14886 . C T, . base_quality;t_lod CONTQ=93;DP=6944;ECNT=12;MBQ=29,11,0;MFRL=346,409,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.532e+00,-3.533e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6759,4,0:1.468e-04,1.464e-04:6763:3316,0,0:3443,4,0 MT 14887 . A . . END=14889 GT:DP:MIN_DP:TLOD 0/0:6810:6808:-3.819e+00 -MT 14890 . A C, . base_quality;t_lod CONTQ=93;DP=6940;ECNT=12;MBQ=29,7,0;MFRL=347,402,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.816e-03;SAPP=9.295e-03,7.630e-05,0.991;TLOD=-3.509e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6729,19,0:1.550e-04,1.469e-04:6748:3296,6,0:3433,13,0 +MT 14890 . A C, . base_quality;t_lod CONTQ=93;DP=6940;ECNT=12;MBQ=29,7,0;MFRL=347,402,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.532e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6729,19,0:1.550e-04,1.469e-04:6748:3296,6,0:3433,13,0 MT 14891 . C . . END=14899 GT:DP:MIN_DP:TLOD 0/0:6829:6812:-3.829e+00 -MT 14900 . G T, . base_quality;t_lod CONTQ=93;DP=6996;ECNT=12;MBQ=29,11,0;MFRL=346,396,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.030e-03;SAPP=1.434e-03,6.373e-05,0.999;TLOD=-3.506e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6790,7,0:1.558e-04,1.456e-04:6797:3300,2,0:3490,5,0 +MT 14900 . G T, . base_quality;t_lod CONTQ=93;DP=6996;ECNT=12;MBQ=29,11,0;MFRL=346,396,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6790,7,0:1.558e-04,1.456e-04:6797:3300,2,0:3490,5,0 MT 14901 . C . . END=14901 GT:DP:MIN_DP:TLOD 0/0:6863:6863:-3.804e+00 -MT 14902 . C T, . PASS CONTQ=93;DP=6978;ECNT=12;MBQ=29,30,0;MFRL=247,347,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.995;SAPP=0.049,0.013,0.938;TLOD=22595.90,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:36,6778,0:0.995,1.456e-04:6814:20,3294,0:16,3484,0 -MT 14903 . A C, . base_quality;t_lod CONTQ=93;DP=6980;ECNT=12;MBQ=29,9,0;MFRL=347,396,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.991e-03;SAPP=1.728e-04,8.280e-04,0.999;TLOD=-3.479e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6778,34,0:1.669e-04,1.461e-04:6812:3299,14,0:3479,20,0 +MT 14902 . C T, . PASS CONTQ=93;DP=6978;ECNT=12;MBQ=29,30,0;MFRL=247,347,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=22595.90,-3.536e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:36,6778,0:0.995,1.456e-04:6814:20,3294,0:16,3484,0 +MT 14903 . A C, . base_quality;t_lod CONTQ=93;DP=6980;ECNT=12;MBQ=29,9,0;MFRL=347,396,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.479e+00,-3.534e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6778,34,0:1.669e-04,1.461e-04:6812:3299,14,0:3479,20,0 MT 14904 . T . . END=14904 GT:DP:MIN_DP:TLOD 0/0:6829:6829:-3.798e+00 MT 14905 . G . . END=14905 GT:DP:MIN_DP:TLOD 0/0:6829:6829:-3.450e+00 MT 14906 . C . . END=14918 GT:DP:MIN_DP:TLOD 0/0:6810:6736:-3.835e+00 -MT 14919 . A C, . base_quality;t_lod CONTQ=93;DP=6920;ECNT=12;MBQ=29,5,0;MFRL=345,344,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.305e-03;SAPP=1.944e-03,1.399e-04,0.998;TLOD=-3.511e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6707,29,0:1.543e-04,1.475e-04:6736:3236,8,0:3471,21,0 +MT 14919 . A C, . base_quality;t_lod CONTQ=93;DP=6920;ECNT=12;MBQ=29,5,0;MFRL=345,344,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6707,29,0:1.543e-04,1.475e-04:6736:3236,8,0:3471,21,0 MT 14920 . C . . END=14926 GT:DP:MIN_DP:TLOD 0/0:6764:6722:-3.829e+00 -MT 14927 . A C, . base_quality;t_lod CONTQ=93;DP=6897;ECNT=12;MBQ=29,5,0;MFRL=345,371,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.516e-03;SAPP=8.243e-05,0.059,0.941;TLOD=-3.480e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6671,37,0:1.658e-04,1.483e-04:6708:3163,19,0:3508,18,0 +MT 14927 . A C, . base_quality;t_lod CONTQ=93;DP=6897;ECNT=12;MBQ=29,5,0;MFRL=345,371,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6671,37,0:1.658e-04,1.483e-04:6708:3163,19,0:3508,18,0 MT 14928 . C . . END=14937 GT:DP:MIN_DP:TLOD 0/0:6758:6683:-3.827e+00 -MT 14938 . A C, . base_quality;t_lod CONTQ=93;DP=6891;ECNT=12;MBQ=29,9,0;MFRL=344,410,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.323e-03;SAPP=0.900,6.044e-06,0.100;TLOD=-3.408e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6680,29,0:1.975e-04,1.480e-04:6709:3124,14,0:3556,15,0 +MT 14938 . A C, . base_quality;t_lod CONTQ=93;DP=6891;ECNT=12;MBQ=29,9,0;MFRL=344,410,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.408e+00,-3.529e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6680,29,0:1.975e-04,1.480e-04:6709:3124,14,0:3556,15,0 MT 14939 . T . . END=14939 GT:DP:MIN_DP:TLOD 0/0:7238:7238:-3.282e+00 MT 14940 . C . . END=14941 GT:DP:MIN_DP:TLOD 0/0:7260:7255:-3.777e+00 MT 14942 . A . . END=14942 GT:DP:MIN_DP:TLOD 0/0:7232:7232:-2.958e+00 @@ -5923,38 +5921,38 @@ MT 15282 . T . . END=15282 GT:DP:MIN_DP:TLOD 0/0:7204:7204:-3.410e+00 MT 15283 . T . . END=15287 GT:DP:MIN_DP:TLOD 0/0:7199:7166:-3.797e+00 MT 15288 . T . . END=15288 GT:DP:MIN_DP:TLOD 0/0:7203:7203:-3.078e+00 MT 15289 . T . . END=15290 GT:DP:MIN_DP:TLOD 0/0:7214:7212:-3.801e+00 -MT 15291 . A C, . base_quality;t_lod CONTQ=93;DP=6816;ECNT=17;MBQ=29,7,0;MFRL=345,422,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.697e-03;SAPP=9.816e-05,0.064,0.936;TLOD=-3.498e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,51,0:1.594e-04,1.502e-04:6626:3391,31,0:3184,20,0 +MT 15291 . A C, . base_quality;t_lod CONTQ=93;DP=6816;ECNT=17;MBQ=29,7,0;MFRL=345,422,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.498e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,51,0:1.594e-04,1.502e-04:6626:3391,31,0:3184,20,0 MT 15292 . C . . END=15293 GT:DP:MIN_DP:TLOD 0/0:6693:6689:-3.826e+00 -MT 15294 . T G, . base_quality;t_lod CONTQ=93;DP=6826;ECNT=17;MBQ=29,12,0;MFRL=345,336,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.352e-03;SAPP=6.884e-04,8.765e-05,0.999;TLOD=-3.509e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6646,9,0:1.551e-04,1.490e-04:6655:3425,5,0:3221,4,0 +MT 15294 . T G, . base_quality;t_lod CONTQ=93;DP=6826;ECNT=17;MBQ=29,12,0;MFRL=345,336,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6646,9,0:1.551e-04,1.490e-04:6655:3425,5,0:3221,4,0 MT 15295 . C . . END=15297 GT:DP:MIN_DP:TLOD 0/0:6709:6707:-3.793e+00 -MT 15298 . C A, . base_quality;t_lod CONTQ=93;DP=6829;ECNT=17;MBQ=29,10,0;MFRL=346,365,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.052e-03;SAPP=2.832e-04,1.211e-04,1.000;TLOD=-3.378e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6645,7,0:2.002e-04,1.489e-04:6652:3422,2,0:3223,5,0 +MT 15298 . C A, . base_quality;t_lod CONTQ=93;DP=6829;ECNT=17;MBQ=29,10,0;MFRL=346,365,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.378e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6645,7,0:2.002e-04,1.489e-04:6652:3422,2,0:3223,5,0 MT 15299 . T . . END=15300 GT:DP:MIN_DP:TLOD 0/0:6720:6718:-3.822e+00 -MT 15301 . G A,T, . t_lod CONTQ=93;DP=6832;ECNT=17;MBQ=29,28,13,0;MFRL=346,321,504,0;MMQ=60,60,60,0;MPOS=17,32,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.055e-03;SAPP=9.569e-05,4.370e-04,0.999;TLOD=-2.786e+00,-3.255e+00,-3.349e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6626,7,15,0:4.128e-04,1.875e-04,1.491e-04:6648:3391,4,12,0:3235,3,3,0 +MT 15301 . G A,T, . t_lod CONTQ=93;DP=6832;ECNT=17;MBQ=29,28,13,0;MFRL=346,321,504,0;MMQ=60,60,60,0;MPOS=17,32,0;POPAF=7.30,7.30,7.30;TLOD=-2.786e+00,-3.255e+00,-3.349e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6626,7,15,0:4.128e-04,1.875e-04,1.491e-04:6648:3391,4,12,0:3235,3,3,0 MT 15302 . C . . END=15303 GT:DP:MIN_DP:TLOD 0/0:6727:6721:-3.811e+00 -MT 15304 . C A, . base_quality;t_lod CONTQ=93;DP=6836;ECNT=17;MBQ=29,14,0;MFRL=345,257,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.202e-03;SAPP=2.132e-04,1.681e-04,1.000;TLOD=-3.382e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6647,8,0:2.031e-04,1.488e-04:6655:3394,5,0:3253,3,0 +MT 15304 . C A, . base_quality;t_lod CONTQ=93;DP=6836;ECNT=17;MBQ=29,14,0;MFRL=345,257,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-3.382e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6647,8,0:2.031e-04,1.488e-04:6655:3394,5,0:3253,3,0 MT 15305 . T . . END=15305 GT:DP:MIN_DP:TLOD 0/0:6738:6738:-3.582e+00 -MT 15306 . T G, . base_quality;t_lod CONTQ=93;DP=6838;ECNT=17;MBQ=29,7,0;MFRL=346,356,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.805e-03;SAPP=6.961e-05,3.591e-03,0.996;TLOD=-3.494e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6636,12,0:1.602e-04,1.490e-04:6648:3392,9,0:3244,3,0 +MT 15306 . T G, . base_quality;t_lod CONTQ=93;DP=6838;ECNT=17;MBQ=29,7,0;MFRL=346,356,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6636,12,0:1.602e-04,1.490e-04:6648:3392,9,0:3244,3,0 MT 15307 . C . . END=15316 GT:DP:MIN_DP:TLOD 0/0:6731:6698:-3.827e+00 -MT 15317 . G T, . base_quality;t_lod CONTQ=93;DP=6845;ECNT=17;MBQ=29,13,0;MFRL=346,470,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.502e-03;SAPP=3.509e-04,1.155e-04,1.000;TLOD=-3.478e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6647,10,0:1.662e-04,1.489e-04:6657:3376,5,0:3271,5,0 +MT 15317 . G T, . base_quality;t_lod CONTQ=93;DP=6845;ECNT=17;MBQ=29,13,0;MFRL=346,470,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6647,10,0:1.662e-04,1.489e-04:6657:3376,5,0:3271,5,0 MT 15318 . C . . END=15322 GT:DP:MIN_DP:TLOD 0/0:6739:6734:-3.822e+00 -MT 15323 . G T, . base_quality;t_lod CONTQ=93;DP=6885;ECNT=17;MBQ=29,12,0;MFRL=348,305,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.646e-03;SAPP=4.510e-04,1.048e-04,0.999;TLOD=-3.525e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6673,11,0:1.494e-04,1.482e-04:6684:3369,8,0:3304,3,0 +MT 15323 . G T, . base_quality;t_lod CONTQ=93;DP=6885;ECNT=17;MBQ=29,12,0;MFRL=348,305,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.525e+00,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6673,11,0:1.494e-04,1.482e-04:6684:3369,8,0:3304,3,0 MT 15324 . C . . END=15325 GT:DP:MIN_DP:TLOD 0/0:6740:6736:-3.799e+00 -MT 15326 . A G, . PASS CONTQ=93;DP=6872;ECNT=17;MBQ=14,29,0;MFRL=364,348,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,1.000;SAPP=0.024,0.029,0.947;TLOD=21768.93,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,6693,0:1.000,1.481e-04:6694:0,3380,0:1,3313,0 +MT 15326 . A G, . PASS CONTQ=93;DP=6872;ECNT=17;MBQ=14,29,0;MFRL=364,348,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=21768.93,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,6693,0:1.000,1.481e-04:6694:0,3380,0:1,3313,0 MT 15327 . C . . END=15327 GT:DP:MIN_DP:TLOD 0/0:6707:6707:-3.793e+00 -MT 15328 . A C, . base_quality;t_lod CONTQ=93;DP=6857;ECNT=17;MBQ=29,5,0;MFRL=348,375,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=3.899e-04,5.494e-04,0.999;TLOD=-3.456e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6585,72,0:1.766e-04,1.499e-04:6657:3329,29,0:3256,43,0 +MT 15328 . A C, . base_quality;t_lod CONTQ=93;DP=6857;ECNT=17;MBQ=29,5,0;MFRL=348,375,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.456e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6585,72,0:1.766e-04,1.499e-04:6657:3329,29,0:3256,43,0 MT 15329 . C . . END=15331 GT:DP:MIN_DP:TLOD 0/0:6704:6692:-3.818e+00 -MT 15332 . C A, . base_quality;t_lod CONTQ=93;DP=6826;ECNT=17;MBQ=29,14,0;MFRL=348,399,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.199e-03;SAPP=1.908e-04,1.858e-04,1.000;TLOD=-3.304e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6663,8,0:2.369e-04,1.488e-04:6671:3373,4,0:3290,4,0 +MT 15332 . C A, . base_quality;t_lod CONTQ=93;DP=6826;ECNT=17;MBQ=29,14,0;MFRL=348,399,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.304e+00,-3.527e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6663,8,0:2.369e-04,1.488e-04:6671:3373,4,0:3290,4,0 MT 15333 . A . . END=15341 GT:DP:MIN_DP:TLOD 0/0:6688:6648:-3.818e+00 -MT 15342 . T G, . base_quality;t_lod CONTQ=93;DP=6771;ECNT=17;MBQ=28,10,0;MFRL=347,377,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.822e-03;SAPP=1.338e-04,3.291e-04,1.000;TLOD=-3.485e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,12,0:1.639e-04,1.507e-04:6587:3325,6,0:3250,6,0 +MT 15342 . T G, . base_quality;t_lod CONTQ=93;DP=6771;ECNT=17;MBQ=28,10,0;MFRL=347,377,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.485e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,12,0:1.639e-04,1.507e-04:6587:3325,6,0:3250,6,0 MT 15343 . C . . END=15352 GT:DP:MIN_DP:TLOD 0/0:6621:6548:-3.819e+00 -MT 15353 . A C, . base_quality;t_lod CONTQ=93;DP=6702;ECNT=17;MBQ=29,2,0;MFRL=347,458,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.060e-03;SAPP=2.361e-04,1.392e-04,1.000;TLOD=-3.517e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6599,7,0:1.522e-04,1.505e-04:6606:3287,5,0:3312,2,0 +MT 15353 . A C, . base_quality;t_lod CONTQ=93;DP=6702;ECNT=17;MBQ=29,2,0;MFRL=347,458,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6599,7,0:1.522e-04,1.505e-04:6606:3287,5,0:3312,2,0 MT 15354 . C . . END=15356 GT:DP:MIN_DP:TLOD 0/0:6574:6539:-3.763e+00 -MT 15357 . G C, . base_quality;t_lod CONTQ=93;DP=6680;ECNT=17;MBQ=29,8,0;MFRL=348,343,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.538e-03;SAPP=1.203e-04,3.408e-04,1.000;TLOD=-3.506e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6494,10,0:1.560e-04,1.525e-04:6504:3240,4,0:3254,6,0 +MT 15357 . G C, . base_quality;t_lod CONTQ=93;DP=6680;ECNT=17;MBQ=29,8,0;MFRL=348,343,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6494,10,0:1.560e-04,1.525e-04:6504:3240,4,0:3254,6,0 MT 15358 . A . . END=15358 GT:DP:MIN_DP:TLOD 0/0:6537:6537:-3.800e+00 -MT 15359 . T A, . base_quality;t_lod CONTQ=93;DP=6674;ECNT=17;MBQ=29,10,0;MFRL=347,483,0;MMQ=60,60,0;MPOS=58,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.180e-04;SAPP=1.349e-03,4.909e-05,0.999;TLOD=-3.513e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,4,0:1.534e-04,1.530e-04:6473:3215,0,0:3254,4,0 +MT 15359 . T A, . base_quality;t_lod CONTQ=93;DP=6674;ECNT=17;MBQ=29,10,0;MFRL=347,483,0;MMQ=60,60,0;MPOS=58,0;POPAF=7.30,7.30;TLOD=-3.513e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,4,0:1.534e-04,1.530e-04:6473:3215,0,0:3254,4,0 MT 15360 . C . . END=15360 GT:DP:MIN_DP:TLOD 0/0:6553:6553:-3.776e+00 -MT 15361 . A C, . base_quality;t_lod CONTQ=93;DP=6665;ECNT=17;MBQ=29,8,0;MFRL=347,412,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.080e-03;SAPP=2.423e-04,2.728e-04,0.999;TLOD=-3.418e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6473,20,0:1.905e-04,1.528e-04:6493:3209,6,0:3264,14,0 -MT 15362 . A C, . base_quality;t_lod CONTQ=93;DP=6658;ECNT=17;MBQ=29,7,0;MFRL=347,332,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.398e-03;SAPP=0.011,8.277e-05,0.989;TLOD=-3.450e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6453,22,0:1.780e-04,1.533e-04:6475:3195,9,0:3258,13,0 +MT 15361 . A C, . base_quality;t_lod CONTQ=93;DP=6665;ECNT=17;MBQ=29,8,0;MFRL=347,412,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.418e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6473,20,0:1.905e-04,1.528e-04:6493:3209,6,0:3264,14,0 +MT 15362 . A C, . base_quality;t_lod CONTQ=93;DP=6658;ECNT=17;MBQ=29,7,0;MFRL=347,332,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.450e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6453,22,0:1.780e-04,1.533e-04:6475:3195,9,0:3258,13,0 MT 15363 . A . . END=15364 GT:DP:MIN_DP:TLOD 0/0:7135:7130:-3.811e+00 MT 15365 . A . . END=15365 GT:DP:MIN_DP:TLOD 0/0:7144:7144:-3.201e+00 MT 15366 . A . . END=15366 GT:DP:MIN_DP:TLOD 0/0:7037:7037:-2.710e+00 @@ -6211,50 +6209,50 @@ MT 16231 . T . . END=16236 GT:DP:MIN_DP:TLOD 0/0:7167:7113:-3.797e+00 MT 16237 . A . . END=16237 GT:DP:MIN_DP:TLOD 0/0:7168:7168:-3.362e+00 MT 16238 . T . . END=16239 GT:DP:MIN_DP:TLOD 0/0:7134:7115:-3.722e+00 MT 16240 . A . . END=16240 GT:DP:MIN_DP:TLOD 0/0:7148:7148:-3.391e+00 -MT 16241 . A C, . base_quality;t_lod CONTQ=93;DP=6687;ECNT=23;MBQ=29,7,0;MFRL=344,447,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.917e-03;SAPP=6.113e-04,2.108e-04,0.999;TLOD=-3.458e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6476,32,0:1.751e-04,1.528e-04:6508:3138,18,0:3338,14,0 +MT 16241 . A C, . base_quality;t_lod CONTQ=93;DP=6687;ECNT=23;MBQ=29,7,0;MFRL=344,447,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.458e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6476,32,0:1.751e-04,1.528e-04:6508:3138,18,0:3338,14,0 MT 16242 . C . . END=16242 GT:DP:MIN_DP:TLOD 0/0:6565:6565:-3.816e+00 -MT 16243 . T C, . base_quality;t_lod CONTQ=93;DP=6703;ECNT=23;MBQ=29,8,0;MFRL=345,349,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.452e-03;SAPP=2.154e-04,3.449e-04,0.999;TLOD=-3.360e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6508,16,0:2.081e-04,1.521e-04:6524:3147,8,0:3361,8,0 +MT 16243 . T C, . base_quality;t_lod CONTQ=93;DP=6703;ECNT=23;MBQ=29,8,0;MFRL=345,349,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.360e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6508,16,0:2.081e-04,1.521e-04:6524:3147,8,0:3361,8,0 MT 16244 . G . . END=16246 GT:DP:MIN_DP:TLOD 0/0:6557:6525:-3.813e+00 -MT 16247 . A C, . base_quality;t_lod CONTQ=93;DP=6707;ECNT=23;MBQ=28,7,0;MFRL=344,396,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.368e-03;SAPP=5.831e-05,0.343,0.657;TLOD=-3.445e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6467,48,0:1.808e-04,1.528e-04:6515:3107,25,0:3360,23,0 +MT 16247 . A C, . base_quality;t_lod CONTQ=93;DP=6707;ECNT=23;MBQ=28,7,0;MFRL=344,396,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.445e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6467,48,0:1.808e-04,1.528e-04:6515:3107,25,0:3360,23,0 MT 16248 . C . . END=16248 GT:DP:MIN_DP:TLOD 0/0:6549:6549:-3.815e+00 -MT 16249 . T C, . PASS CONTQ=93;DP=6708;ECNT=23;MBQ=29,29,0;MFRL=345,242,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.938e-03;SAPP=1.022e-04,7.463e-04,0.999;TLOD=15.12,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6695,13,0:2.056e-03,1.490e-04:6708:3226,3,0:3469,10,0:0|1:16249_T_C:16249 -MT 16250 . C A, . base_quality;t_lod CONTQ=93;DP=6714;ECNT=23;MBQ=29,16,0;MFRL=344,355,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.222e-03;SAPP=2.074e-04,1.746e-04,1.000;TLOD=-3.418e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6540,8,0:1.920e-04,1.513e-04:6548:3144,4,0:3396,4,0 +MT 16249 . T C, . PASS CONTQ=93;DP=6708;ECNT=23;MBQ=29,29,0;MFRL=345,242,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=15.12,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6695,13,0:2.056e-03,1.490e-04:6708:3226,3,0:3469,10,0:0|1:16249_T_C:16249 +MT 16250 . C A, . base_quality;t_lod CONTQ=93;DP=6714;ECNT=23;MBQ=29,16,0;MFRL=344,355,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.418e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6540,8,0:1.920e-04,1.513e-04:6548:3144,4,0:3396,4,0 MT 16251 . C . . END=16252 GT:DP:MIN_DP:TLOD 0/0:6588:6583:-3.815e+00 MT 16253 . A . . END=16253 GT:DP:MIN_DP:TLOD 0/0:6571:6571:-3.384e+00 MT 16254 . A . . END=16254 GT:DP:MIN_DP:TLOD 0/0:6544:6544:-3.662e+00 -MT 16255 . G T, . base_quality;t_lod CONTQ=93;DP=6706;ECNT=23;MBQ=29,10,0;MFRL=344,409,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.072e-03;SAPP=2.623e-04,1.314e-04,1.000;TLOD=-3.514e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6520,7,0:1.531e-04,1.520e-04:6527:3125,6,0:3395,1,0 +MT 16255 . G T, . base_quality;t_lod CONTQ=93;DP=6706;ECNT=23;MBQ=29,10,0;MFRL=344,409,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.514e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6520,7,0:1.531e-04,1.520e-04:6527:3125,6,0:3395,1,0 MT 16256 . C . . END=16256 GT:DP:MIN_DP:TLOD 0/0:6541:6541:-3.811e+00 -MT 16257 . C CA, . PASS CONTQ=93;DP=6703;ECNT=23;MBQ=29,29,0;MFRL=344,242,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.939e-03;SAPP=9.949e-05,8.097e-04,0.999;TLOD=15.12,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6690,13,0:2.057e-03,1.491e-04:6703:3207,3,0:3483,10,0:0|1:16249_T_C:16249 +MT 16257 . C CA, . PASS CONTQ=93;DP=6703;ECNT=23;MBQ=29,29,0;MFRL=344,242,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=15.12,-3.526e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6690,13,0:2.057e-03,1.491e-04:6703:3207,3,0:3483,10,0:0|1:16249_T_C:16249 MT 16258 . A . . END=16262 GT:DP:MIN_DP:TLOD 0/0:6583:6551:-3.812e+00 -MT 16263 . TC T, . PASS CONTQ=93;DP=6779;ECNT=23;MBQ=29,29,0;MFRL=343,251,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.770e-03;SAPP=1.003e-04,5.677e-04,0.999;TLOD=13.27,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6767,12,0:1.887e-03,1.475e-04:6779:3239,3,0:3528,9,0:0|1:16249_T_C:16249 +MT 16263 . TC T, . PASS CONTQ=93;DP=6779;ECNT=23;MBQ=29,29,0;MFRL=343,251,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=13.27,-3.530e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6767,12,0:1.887e-03,1.475e-04:6779:3239,3,0:3528,9,0:0|1:16249_T_C:16249 MT 16265 . A . . END=16265 GT:DP:MIN_DP:TLOD 0/0:6562:6562:-3.499e+00 MT 16266 . C . . END=16266 GT:DP:MIN_DP:TLOD 0/0:6598:6598:-3.815e+00 -MT 16267 . C A, . base_quality;t_lod CONTQ=93;DP=6739;ECNT=23;MBQ=29,13,0;MFRL=342,440,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.137e-04;SAPP=1.627e-04,1.518e-04,1.000;TLOD=-3.396e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6561,6,0:1.958e-04,1.508e-04:6567:3134,3,0:3427,3,0 -MT 16268 . C A, . base_quality;t_lod CONTQ=93;DP=6740;ECNT=23;MBQ=29,19,0;MFRL=342,281,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.090e-04;SAPP=3.055e-04,6.767e-05,1.000;TLOD=-3.488e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6564,4,0:1.625e-04,1.508e-04:6568:3133,0,0:3431,4,0 +MT 16267 . C A, . base_quality;t_lod CONTQ=93;DP=6739;ECNT=23;MBQ=29,13,0;MFRL=342,440,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.396e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6561,6,0:1.958e-04,1.508e-04:6567:3134,3,0:3427,3,0 +MT 16268 . C A, . base_quality;t_lod CONTQ=93;DP=6740;ECNT=23;MBQ=29,19,0;MFRL=342,281,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.488e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6564,4,0:1.625e-04,1.508e-04:6568:3133,0,0:3431,4,0 MT 16269 . A . . END=16269 GT:DP:MIN_DP:TLOD 0/0:6557:6557:-3.794e+00 -MT 16270 . C A, . base_quality;t_lod CONTQ=93;DP=6748;ECNT=23;MBQ=29,12,0;MFRL=341,409,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.134e-04;SAPP=3.311e-04,9.258e-05,1.000;TLOD=-3.519e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6563,6,0:1.514e-04,1.507e-04:6569:3132,2,0:3431,4,0 +MT 16270 . C A, . base_quality;t_lod CONTQ=93;DP=6748;ECNT=23;MBQ=29,12,0;MFRL=341,409,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;TLOD=-3.519e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6563,6,0:1.514e-04,1.507e-04:6569:3132,2,0:3431,4,0 MT 16271 . T . . END=16273 GT:DP:MIN_DP:TLOD 0/0:6552:6533:-3.811e+00 -MT 16274 . G A, . PASS CONTQ=93;DP=6755;ECNT=23;MBQ=29,28,0;MFRL=341,313,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.047e-03;SAPP=1.495e-04,5.707e-04,0.999;TLOD=15.33,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6543,20,0:2.132e-03,1.510e-04:6563:3105,10,0:3438,10,0 +MT 16274 . G A, . PASS CONTQ=93;DP=6755;ECNT=23;MBQ=29,28,0;MFRL=341,313,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=15.33,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6543,20,0:2.132e-03,1.510e-04:6563:3105,10,0:3438,10,0 MT 16275 . A . . END=16277 GT:DP:MIN_DP:TLOD 0/0:6564:6559:-3.773e+00 -MT 16278 . C T, . PASS CONTQ=93;DP=6775;ECNT=23;MBQ=5,29,0;MFRL=358,341,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.995;SAPP=7.931e-03,0.243,0.749;TLOD=21115.99,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:32,6544,0:0.999,1.509e-04:6576:14,3110,0:18,3434,0 +MT 16278 . C T, . PASS CONTQ=93;DP=6775;ECNT=23;MBQ=5,29,0;MFRL=358,341,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=21115.99,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:32,6544,0:0.999,1.509e-04:6576:14,3110,0:18,3434,0 MT 16279 . C . . END=16279 GT:DP:MIN_DP:TLOD 0/0:6573:6573:-3.816e+00 -MT 16280 . A C, . base_quality;t_lod CONTQ=93;DP=6767;ECNT=23;MBQ=29,9,0;MFRL=341,342,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.073e-03;SAPP=5.274e-07,0.992,8.220e-03;TLOD=-3.470e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6547,40,0:1.702e-04,1.511e-04:6587:3129,8,0:3418,32,0 -MT 16281 . A C, . base_quality;t_lod CONTQ=93;DP=6767;ECNT=23;MBQ=29,7,0;MFRL=340,347,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.417e-03;SAPP=1.331e-04,2.443e-03,0.997;TLOD=-3.421e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6536,29,0:1.913e-04,1.512e-04:6565:3127,6,0:3409,23,0 +MT 16280 . A C, . base_quality;t_lod CONTQ=93;DP=6767;ECNT=23;MBQ=29,9,0;MFRL=341,342,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.470e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6547,40,0:1.702e-04,1.511e-04:6587:3129,8,0:3418,32,0 +MT 16281 . A C, . base_quality;t_lod CONTQ=93;DP=6767;ECNT=23;MBQ=29,7,0;MFRL=340,347,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.421e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6536,29,0:1.913e-04,1.512e-04:6565:3127,6,0:3409,23,0 MT 16282 . C . . END=16282 GT:DP:MIN_DP:TLOD 0/0:6555:6555:-3.712e+00 MT 16283 . A . . END=16283 GT:DP:MIN_DP:TLOD 0/0:6567:6567:-3.215e+00 -MT 16284 . A C,G, . PASS CONTQ=93;DP=6756;ECNT=23;MBQ=29,9,28,0;MFRL=341,409,170,0;MMQ=60,60,60,0;MPOS=20,20,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.991e-03;SAPP=1.011e-04,8.989e-04,0.999;TLOD=-3.277e+00,15.25,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6518,40,13,0:1.776e-04,2.041e-03,1.480e-04:6571:3097,18,4,0:3421,22,9,0 -MT 16285 . A C, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=23;MBQ=28,8,0;MFRL=340,402,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.004e-03;SAPP=9.228e-08,0.999,1.267e-03;TLOD=-3.316e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6494,59,0:2.417e-04,1.521e-04:6553:3064,36,0:3430,23,0 +MT 16284 . A C,G, . PASS CONTQ=93;DP=6756;ECNT=23;MBQ=29,9,28,0;MFRL=341,409,170,0;MMQ=60,60,60,0;MPOS=20,20,0;POPAF=7.30,7.30,7.30;TLOD=-3.277e+00,15.25,-3.353e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6518,40,13,0:1.776e-04,2.041e-03,1.480e-04:6571:3097,18,4,0:3421,22,9,0 +MT 16285 . A C, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=23;MBQ=28,8,0;MFRL=340,402,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.316e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6494,59,0:2.417e-04,1.521e-04:6553:3064,36,0:3430,23,0 MT 16286 . C . . END=16287 GT:DP:MIN_DP:TLOD 0/0:6565:6555:-3.812e+00 -MT 16288 . T C, . PASS CONTQ=93;DP=6743;ECNT=23;MBQ=29,28,0;MFRL=341,226,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.928e-03;SAPP=1.269e-04,4.085e-04,0.999;TLOD=15.08,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6730,13,0:2.045e-03,1.482e-04:6743:3192,3,0:3538,10,0:0|1:16249_T_C:16249 +MT 16288 . T C, . PASS CONTQ=93;DP=6743;ECNT=23;MBQ=29,28,0;MFRL=341,226,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=15.08,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6730,13,0:2.045e-03,1.482e-04:6743:3192,3,0:3538,10,0:0|1:16249_T_C:16249 MT 16289 . A . . END=16289 GT:DP:MIN_DP:TLOD 0/0:6549:6549:-3.754e+00 -MT 16290 . C T, . PASS CONTQ=93;DP=6736;ECNT=23;MBQ=29,27,0;MFRL=341,226,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.930e-03;SAPP=1.274e-04,4.075e-04,0.999;TLOD=15.09,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6723,13,0:2.047e-03,1.484e-04:6736:3180,3,0:3543,10,0:0|1:16249_T_C:16249 -MT 16291 . C A, . t_lod CONTQ=93;DP=6739;ECNT=23;MBQ=29,22,0;MFRL=340,15995,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.504e-04;SAPP=1.364e-04,4.667e-05,1.000;TLOD=-3.507e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6647,1,0:1.557e-04,1.496e-04:6648:3144,0,0:3503,1,0 +MT 16290 . C T, . PASS CONTQ=93;DP=6736;ECNT=23;MBQ=29,27,0;MFRL=341,226,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=15.09,-3.528e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6723,13,0:2.047e-03,1.484e-04:6736:3180,3,0:3543,10,0:0|1:16249_T_C:16249 +MT 16291 . C A, . t_lod CONTQ=93;DP=6739;ECNT=23;MBQ=29,22,0;MFRL=340,15995,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.507e+00,-3.524e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6647,1,0:1.557e-04,1.496e-04:6648:3144,0,0:3503,1,0 MT 16292 . C . . END=16292 GT:DP:MIN_DP:TLOD 0/0:6591:6591:-3.626e+00 -MT 16293 . A T,C, . base_quality CONTQ=93;DP=6720;ECNT=23;MBQ=29,10,9,0;MFRL=341,332,322,0;MMQ=60,60,60,0;MPOS=16,17,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,7.350e-03;SAPP=8.636e-05,0.111,0.889;TLOD=-3.273e+00,15.29,-3.346e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6483,3,48,0:1.762e-04,2.353e-03,1.502e-04:6534:3070,2,17,0:3413,1,31,0 +MT 16293 . A T,C, . base_quality CONTQ=93;DP=6720;ECNT=23;MBQ=29,10,9,0;MFRL=341,332,322,0;MMQ=60,60,60,0;MPOS=16,17,0;POPAF=7.30,7.30,7.30;TLOD=-3.273e+00,15.29,-3.346e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6483,3,48,0:1.762e-04,2.353e-03,1.502e-04:6534:3070,2,17,0:3413,1,31,0 MT 16294 . C . . END=16300 GT:DP:MIN_DP:TLOD 0/0:6543:6526:-3.807e+00 -MT 16301 . C T, . PASS CONTQ=93;DP=6689;ECNT=23;MBQ=29,29,0;MFRL=341,242,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.943e-03;SAPP=1.223e-04,4.572e-04,0.999;TLOD=13.35,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6676,13,0:1.915e-03,1.495e-04:6689:3148,4,0:3528,9,0:0|1:16249_T_C:16249 +MT 16301 . C T, . PASS CONTQ=93;DP=6689;ECNT=23;MBQ=29,29,0;MFRL=341,242,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=13.35,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6676,13,0:1.915e-03,1.495e-04:6689:3148,4,0:3528,9,0:0|1:16249_T_C:16249 MT 16302 . A . . END=16310 GT:DP:MIN_DP:TLOD 0/0:6508:6449:-3.813e+00 -MT 16311 . T A,C, . PASS CONTQ=93;DP=6659;ECNT=23;MBQ=29,11,28,0;MFRL=341,254,251,0;MMQ=60,60,60,0;MPOS=20,29,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.545e-03;SAPP=1.154e-04,3.720e-04,1.000;TLOD=-3.326e+00,8.45,-3.343e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6463,6,10,0:1.575e-04,1.492e-03,1.512e-04:6479:3030,1,3,0:3433,5,7,0 +MT 16311 . T A,C, . PASS CONTQ=93;DP=6659;ECNT=23;MBQ=29,11,28,0;MFRL=341,254,251,0;MMQ=60,60,60,0;MPOS=20,29,0;POPAF=7.30,7.30,7.30;TLOD=-3.326e+00,8.45,-3.343e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6463,6,10,0:1.575e-04,1.492e-03,1.512e-04:6479:3030,1,3,0:3433,5,7,0 MT 16312 . A . . END=16315 GT:DP:MIN_DP:TLOD 0/0:7175:7150:-3.796e+00 MT 16316 . A . . END=16317 GT:DP:MIN_DP:TLOD 0/0:7194:7185:-2.983e+00 MT 16318 . A . . END=16318 GT:DP:MIN_DP:TLOD 0/0:7172:7172:-3.639e+00 @@ -6326,51 +6324,51 @@ MT 16476 . A . . END=16478 GT:DP:MIN_DP:TLOD 0/0:7217:7212:-3.839e+00 MT 16479 . T . . END=16480 GT:DP:MIN_DP:TLOD 0/0:7253:7236:-3.333e+00 MT 16481 . A . . END=16484 GT:DP:MIN_DP:TLOD 0/0:7261:7208:-3.809e+00 MT 16485 . G . . END=16485 GT:DP:MIN_DP:TLOD 0/0:7250:7250:-3.407e+00 -MT 16486 . A C,T, . base_quality;t_lod CONTQ=93;DP=3998;ECNT=18;MBQ=29,8,20,0;MFRL=451,16037,16069,0;MMQ=60,60,60,0;MPOS=65,41,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,4.360e-03;SAPP=0.077,9.718e-05,0.923;TLOD=-2.708e+00,-3.072e+00,-3.117e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3882,17,3,0:5.547e-04,2.829e-04,2.546e-04:3902:2049,3,2,0:1833,14,1,0 -MT 16487 . A C, . base_quality;t_lod CONTQ=93;DP=3950;ECNT=18;MBQ=29,6,0;MFRL=450,15983,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.336e-03;SAPP=1.180e-03,1.493e-04,0.999;TLOD=-3.226e+00,-3.288e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3844,9,0:2.979e-04,2.574e-04:3853:2021,6,0:1823,3,0 +MT 16486 . A C,T, . base_quality;t_lod CONTQ=93;DP=3998;ECNT=18;MBQ=29,8,20,0;MFRL=451,16037,16069,0;MMQ=60,60,60,0;MPOS=65,41,0;POPAF=7.30,7.30,7.30;TLOD=-2.708e+00,-3.072e+00,-3.117e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3882,17,3,0:5.547e-04,2.829e-04,2.546e-04:3902:2049,3,2,0:1833,14,1,0 +MT 16487 . A C, . base_quality;t_lod CONTQ=93;DP=3950;ECNT=18;MBQ=29,6,0;MFRL=450,15983,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.226e+00,-3.288e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3844,9,0:2.979e-04,2.574e-04:3853:2021,6,0:1823,3,0 MT 16488 . C . . END=16488 GT:DP:MIN_DP:TLOD 0/0:3813:3813:-3.455e+00 MT 16489 . T . . END=16490 GT:DP:MIN_DP:TLOD 0/0:3747:3719:-3.524e+00 MT 16491 . T . . END=16491 GT:DP:MIN_DP:TLOD 0/0:3688:3688:-3.397e+00 MT 16492 . A . . END=16493 GT:DP:MIN_DP:TLOD 0/0:3623:3600:-3.545e+00 -MT 16494 . C A, . t_lod CONTQ=93;DP=3645;ECNT=18;MBQ=29,28,0;MFRL=453,15953,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.618e-04;SAPP=7.551e-04,8.195e-05,0.999;TLOD=-2.915e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3558,2,0:5.163e-04,2.782e-04:3560:1878,0,0:1680,2,0 +MT 16494 . C A, . t_lod CONTQ=93;DP=3645;ECNT=18;MBQ=29,28,0;MFRL=453,15953,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-2.915e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3558,2,0:5.163e-04,2.782e-04:3560:1878,0,0:1680,2,0 MT 16495 . C . . END=16495 GT:DP:MIN_DP:TLOD 0/0:3511:3511:-3.511e+00 MT 16496 . G . . END=16496 GT:DP:MIN_DP:TLOD 0/0:3452:3452:-2.896e+00 MT 16497 . A . . END=16497 GT:DP:MIN_DP:TLOD 0/0:3421:3421:-3.324e+00 MT 16498 . C . . END=16501 GT:DP:MIN_DP:TLOD 0/0:3315:3265:-3.528e+00 MT 16502 . T . . END=16505 GT:DP:MIN_DP:TLOD 0/0:3146:3090:-3.495e+00 -MT 16506 . T A, . t_lod CONTQ=93;DP=3142;ECNT=18;MBQ=29,21,0;MFRL=455,522,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.560e-04;SAPP=1.127e-04,5.910e-04,0.999;TLOD=-3.159e+00,-3.188e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3047,2,0:3.465e-04,3.243e-04:3049:1596,2,0:1451,0,0 +MT 16506 . T A, . t_lod CONTQ=93;DP=3142;ECNT=18;MBQ=29,21,0;MFRL=455,522,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.159e+00,-3.188e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3047,2,0:3.465e-04,3.243e-04:3049:1596,2,0:1451,0,0 MT 16507 . C . . END=16509 GT:DP:MIN_DP:TLOD 0/0:2966:2922:-3.470e+00 -MT 16510 . A C, . base_quality;t_lod CONTQ=93;DP=2976;ECNT=18;MBQ=29,9,0;MFRL=459,16037,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.778e-03;SAPP=2.766e-03,1.581e-04,0.997;TLOD=-3.117e+00,-3.163e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2872,8,0:3.822e-04,3.434e-04:2880:1498,4,0:1374,4,0 +MT 16510 . A C, . base_quality;t_lod CONTQ=93;DP=2976;ECNT=18;MBQ=29,9,0;MFRL=459,16037,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.117e+00,-3.163e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2872,8,0:3.822e-04,3.434e-04:2880:1498,4,0:1374,4,0 MT 16511 . C . . END=16515 GT:DP:MIN_DP:TLOD 0/0:2744:2658:-3.430e+00 -MT 16516 . G T, . base_quality;t_lod CONTQ=93;DP=2716;ECNT=18;MBQ=29,12,0;MFRL=455,16215,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.141e-03;SAPP=5.431e-04,1.746e-04,0.999;TLOD=-3.122e+00,-3.124e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2626,3,0:3.776e-04,3.756e-04:2629:1374,2,0:1252,1,0 -MT 16517 . G T, . base_quality;t_lod CONTQ=93;DP=2676;ECNT=18;MBQ=29,14,0;MFRL=459,8277,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.758e-04;SAPP=2.837e-04,2.122e-04,1.000;TLOD=-3.115e+00,-3.116e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2576,2,0:3.838e-04,3.824e-04:2578:1350,0,0:1226,2,0 +MT 16516 . G T, . base_quality;t_lod CONTQ=93;DP=2716;ECNT=18;MBQ=29,12,0;MFRL=455,16215,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.122e+00,-3.124e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2626,3,0:3.776e-04,3.756e-04:2629:1374,2,0:1252,1,0 +MT 16517 . G T, . base_quality;t_lod CONTQ=93;DP=2676;ECNT=18;MBQ=29,14,0;MFRL=459,8277,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.115e+00,-3.116e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2576,2,0:3.838e-04,3.824e-04:2578:1350,0,0:1226,2,0 MT 16518 . G . . END=16518 GT:DP:MIN_DP:TLOD 0/0:2519:2519:-3.403e+00 -MT 16519 . T C, . PASS CONTQ=93;DP=2584;ECNT=18;MBQ=28,29,0;MFRL=708,462,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.998;SAPP=0.030,0.023,0.947;TLOD=8041.94,-3.100e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,2478,0:0.998,3.966e-04:2482:2,1297,0:2,1181,0 +MT 16519 . T C, . PASS CONTQ=93;DP=2584;ECNT=18;MBQ=28,29,0;MFRL=708,462,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=8041.94,-3.100e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4,2478,0:0.998,3.966e-04:2482:2,1297,0:2,1181,0 MT 16520 . C . . END=16526 GT:DP:MIN_DP:TLOD 0/0:2271:2137:-3.330e+00 -MT 16527 . C T, . base_quality;t_lod CONTQ=93;DP=2200;ECNT=18;MBQ=29,19,0;MFRL=468,187,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.474e-04;SAPP=3.443e-04,2.596e-04,0.999;TLOD=-2.752e+00,-3.031e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2109,2,0:7.295e-04,4.657e-04:2111:1092,0,0:1017,2,0 +MT 16527 . C T, . base_quality;t_lod CONTQ=93;DP=2200;ECNT=18;MBQ=29,19,0;MFRL=468,187,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-2.752e+00,-3.031e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2109,2,0:7.295e-04,4.657e-04:2111:1092,0,0:1017,2,0 MT 16528 . C . . END=16529 GT:DP:MIN_DP:TLOD 0/0:2034:2010:-3.246e+00 -MT 16530 . A C, . base_quality;t_lod CONTQ=93;DP=2070;ECNT=18;MBQ=29,8,0;MFRL=468,16189,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.539e-03;SAPP=8.862e-03,1.826e-04,0.991;TLOD=-2.996e+00,-3.003e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1971,7,0:5.049e-04,4.967e-04:1978:1023,3,0:948,4,0 +MT 16530 . A C, . base_quality;t_lod CONTQ=93;DP=2070;ECNT=18;MBQ=29,8,0;MFRL=468,16189,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-2.996e+00,-3.003e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1971,7,0:5.049e-04,4.967e-04:1978:1023,3,0:948,4,0 MT 16531 . A . . END=16531 GT:DP:MIN_DP:TLOD 0/0:1917:1917:-1.895e+00 -MT 16532 . A C, . base_quality;t_lod CONTQ=93;DP=1979;ECNT=18;MBQ=29,8,0;MFRL=471,16085,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.132e-03;SAPP=1.368e-03,2.254e-04,0.998;TLOD=-2.977e+00,-2.981e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1872,4,0:5.268e-04,5.217e-04:1876:972,1,0:900,3,0 +MT 16532 . A C, . base_quality;t_lod CONTQ=93;DP=1979;ECNT=18;MBQ=29,8,0;MFRL=471,16085,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-2.977e+00,-2.981e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1872,4,0:5.268e-04,5.217e-04:1876:972,1,0:900,3,0 MT 16533 . T . . END=16536 GT:DP:MIN_DP:TLOD 0/0:1743:1675:-3.255e+00 -MT 16537 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=1735;ECNT=18;MBQ=29,0,0;MFRL=470,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=2.082e-04,1.756e-04,1.000;TLOD=-2.925e+00,-2.925e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1645,0,0:5.942e-04,5.942e-04:1645:858,0,0:787,0,0 -MT 16538 . C A, . base_quality;t_lod CONTQ=93;DP=1690;ECNT=18;MBQ=29,9,0;MFRL=469,16078,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.234e-04;SAPP=6.840e-04,1.791e-04,0.999;TLOD=-2.912e+00,-2.913e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1603,1,0:6.118e-04,6.101e-04:1604:842,0,0:761,1,0 +MT 16537 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=1735;ECNT=18;MBQ=29,0,0;MFRL=470,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-2.925e+00,-2.925e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1645,0,0:5.942e-04,5.942e-04:1645:858,0,0:787,0,0 +MT 16538 . C A, . base_quality;t_lod CONTQ=93;DP=1690;ECNT=18;MBQ=29,9,0;MFRL=469,16078,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-2.912e+00,-2.913e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1603,1,0:6.118e-04,6.101e-04:1604:842,0,0:761,1,0 MT 16539 . A . . END=16539 GT:DP:MIN_DP:TLOD 0/0:1538:1538:-3.183e+00 MT 16540 . C . . END=16540 GT:DP:MIN_DP:TLOD 0/0:1480:1480:-2.863e+00 MT 16541 . A . . END=16543 GT:DP:MIN_DP:TLOD 0/0:1390:1329:-3.162e+00 -MT 16544 . T G, . base_quality;t_lod CONTQ=93;DP=1408;ECNT=18;MBQ=29,6,0;MFRL=489,276,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.788e-03;SAPP=1.161e-03,4.657e-04,0.998;TLOD=-2.823e+00,-2.830e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:1315,5,0:7.519e-04,7.388e-04:1320:684,4,0:631,1,0:0|1:16544_T_G:16544 +MT 16544 . T G, . base_quality;t_lod CONTQ=93;DP=1408;ECNT=18;MBQ=29,6,0;MFRL=489,276,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-2.823e+00,-2.830e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:1315,5,0:7.519e-04,7.388e-04:1320:684,4,0:631,1,0:0|1:16544_T_G:16544 MT 16545 . T . . END=16547 GT:DP:MIN_DP:TLOD 0/0:1209:1164:-3.085e+00 MT 16548 . C . . END=16548 GT:DP:MIN_DP:TLOD 0/0:1120:1120:-2.732e+00 MT 16549 . C . . END=16549 GT:DP:MIN_DP:TLOD 0/0:1069:1069:-2.487e+00 MT 16550 . T . . END=16551 GT:DP:MIN_DP:TLOD 0/0:991:969:-2.923e+00 -MT 16552 . A C, . base_quality;t_lod CONTQ=93;DP=1039;ECNT=18;MBQ=29,7,0;MFRL=484,16188,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.175e-03;SAPP=6.128e-03,3.064e-04,0.994;TLOD=-2.685e+00,-2.691e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:942,3,0:1.034e-03,1.019e-03:945:490,2,0:452,1,0 -MT 16553 . A C, . base_quality;t_lod CONTQ=93;DP=992;ECNT=18;MBQ=29,6,0;MFRL=486,16149,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.689e-03;SAPP=0.059,3.074e-04,0.940;TLOD=-2.656e+00,-2.669e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:891,6,0:1.108e-03,1.072e-03:897:468,2,0:423,4,0 +MT 16552 . A C, . base_quality;t_lod CONTQ=93;DP=1039;ECNT=18;MBQ=29,7,0;MFRL=484,16188,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-2.685e+00,-2.691e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:942,3,0:1.034e-03,1.019e-03:945:490,2,0:452,1,0 +MT 16553 . A C, . base_quality;t_lod CONTQ=93;DP=992;ECNT=18;MBQ=29,6,0;MFRL=486,16149,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-2.656e+00,-2.669e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:891,6,0:1.108e-03,1.072e-03:897:468,2,0:423,4,0 MT 16554 . A . . END=16555 GT:DP:MIN_DP:TLOD 0/0:803:781:-2.907e+00 -MT 16556 . A C, . base_quality;t_lod CONTQ=93;DP=846;ECNT=18;MBQ=29,9,0;MFRL=488,15967,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.963e-03;SAPP=1.756e-03,6.133e-04,0.998;TLOD=-2.590e+00,-2.598e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:754,3,0:1.286e-03,1.262e-03:757:396,1,0:358,2,0 +MT 16556 . A C, . base_quality;t_lod CONTQ=93;DP=846;ECNT=18;MBQ=29,9,0;MFRL=488,15967,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-2.590e+00,-2.598e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:754,3,0:1.286e-03,1.262e-03:757:396,1,0:358,2,0 MT 16557 . A . . END=16557 GT:DP:MIN_DP:TLOD 0/0:686:686:-2.834e+00 MT 16558 . G . . END=16558 GT:DP:MIN_DP:TLOD 0/0:640:640:-1.431e+00 MT 16559 . A . . END=16561 GT:DP:MIN_DP:TLOD 0/0:552:503:-2.779e+00 -MT 16562 . T G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=562;ECNT=18;MBQ=29,0,0;MFRL=481,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=6.090e-04,5.007e-04,0.999;TLOD=-2.450e+00,-2.450e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:562,0,0:1.771e-03,1.771e-03:562:290,0,0:272,0,0:0|1:16544_T_G:16544 +MT 16562 . T G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=562;ECNT=18;MBQ=29,0,0;MFRL=481,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-2.450e+00,-2.450e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:562,0,0:1.771e-03,1.771e-03:562:290,0,0:272,0,0:0|1:16544_T_G:16544 MT 16563 . C . . END=16563 GT:DP:MIN_DP:TLOD 0/0:4200:4200:-3.561e+00 MT 16564 . A . . END=16564 GT:DP:MIN_DP:TLOD 0/0:4153:4153:-3.459e+00 MT 16565 . C . . END=16569 GT:DP:MIN_DP:TLOD 0/0:3954:3829:-3.604e+00 diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12891.MT.filtered.g.vcf.idx b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA12891.MT.filtered.g.vcf.idx index d156bec917941127bf39a0f8e6ff978072921ac4..74529727821b2f0e6035c5200e8e5689a2b1e7ef 100644 GIT binary patch literal 216 zcmXv|I|{-;5S?ISX=!gO86pU3r9=!Cv5I1wWG8XSnuVQBJda253f3OO1Gph(;K7?= z-X}TkuO0x5915vugNSD)!zj{Lii~Q^j7|lXsjZMrj+WS>A=Zt_iBX%f|By9XX&Xy; zBc+^BkU^`pVtk~k>MTQj&ty%}B|I>mcEMt`4*WRrU9crX!Y}H~yP5{0hbaeK=M^k|3wqFMA57K)%+W-In literal 3689 zcmZ9Od2Cfh6vhvN3aB6`T0l`*iYUI$ndRO)EMlbl3U>K1gBI=kvtF1_l?RqdtDx@)fJT+`LDbXlpZuDN(odq?TA_O+$D zmU`BS=R$L_fO%JzI!nt7D+^aITR|(w41yWami@2qTh%XpBx=RqhNhXtDNNdW?Np>$ zfCez^y@`zgL+lf!L6rat!0fD!BLR*$QJ$TSGDSojGbAdCMG+G_&nAhY%rqgkk%=sP zMd1Nhv%%T|SP>iNjE!w(!W@WFk>hM()*vQvoOqYbLbQzk`y@^>f^b!AtamnxjuEfY z&am;>;_&mzI2*exJdP=0_D&-TNmD{`qT*QFvaKiV2q{mpDOyovVC(RZPC-I#!rC8> z4O?|=lyy-S{vu?>=~%gP-df>_ydM@c7l|Vmc`=+dM=7OMT!68Tvd{(U2oU*JS#%lo zfqEpq+Q2ZVj!}$i$||K%lJhme0U6e|T5DXO7L}={D)^d+%NddwYzP;HF4sAusY8TH zRynXwwK2z8F-5CPaEPtX?ahWAn*?oG<$zXBsZ-UvU@uzFd2JH3KF;UC+LU^oOS%!Q zH#w>_v{tdo=QlW5h5o9J%!oE})sblxBD1ViPHRIgEPIpp6|FbBA?Tmw9Q;nKEYB8llnTJ_f=uX37hg^Nwv5%Ks{PAU(J;2D5=gQ z?h|NPMF_ci8#)AmLx$?-aPYv%;_^|G;5dZACXPARDLVDWP2#hABx|emaNrE*j~A!j z5p((05w#9U;t2O#F3%kD!RYRMV{p18+Pi$xvy7xmhPx@Z9Zq){Yqr%n(H!c{vDQAX z4o3&r*?e9FTbJZE&*_q}M>TR8Oj8y6$mjE&ZYRMNRqc&?Ff5tivddo?p`AF15|{Tb z<0#iqD$QUL*qDqx6EwBo2TILQbS76^%|GcVZWJk7qk=!?^s9S4UBtzKK^V! ziRht|iTa)luY00f@%^4-h!!79^wJ@DRWC3^zYHMScqGxPF~SaxCEA0>W%#AgvnicQ zo6jP85RbFKd&AoupI6SNbh!ucyrw=y)LKI{8=Bo1x7;Rd`YA-~5yC{QGxAqqS0R?= z@LvaB+9Pc1c%n0*`5EJ`qhWy0C(yMHBpQJq8QCx$XDO~3acGP^fJb-z2RpR z(P+fCehAURq1Z>Kun_a89x`XxoVhY?9Qx7rDP-IMHPAAqPcQGZJ~i zyz9X~-!F_u5S;_f9~ia6Wp3EVh2R75_tp+!=Z_=mhJO=yZ=LD(sH zZiDtx)U@5AF!*doFD^z+MvWnQpoAjh6LR225gj+0=-L6oc0%LOM`t6>w>}WRpnDke zE%=HaVXMI=Lt`=j@gFO?AKg$DtHHJg84P)d}72TMzs4d3!ev*U5&`pEq zsbJ&!M0Y=Yw&MGxr3pgN-c7*9VVEUZxj|AAmr@2{}0@O?Al8Qoi%dniKAV%$T!aS7lP<}R^B z7dU7a3JbAp)I^sX^yXk;KTp7!#=af}|LZsLTMpgYpuzkmCAv#$i9Uu`GuD~5LD+|< z4yQktDOe1=BrLf(Ir5FBhfFHO}*e>+dx6_F}I2ZMOR9J{*Gv<8* te%*Rup>FrhAoAxC&HYH&2-N69%)1x7*e&c|tT6?e9T>|G3G0tu`wuG#n_mC` diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA19240.MT.filtered.g.vcf b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA19240.MT.filtered.g.vcf index 8dca8eb3cfb..48fc3233329 100644 --- a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA19240.MT.filtered.g.vcf +++ b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA19240.MT.filtered.g.vcf @@ -63,8 +63,6 @@ ##INFO= ##INFO= ##INFO= -##INFO= -##INFO= ##INFO= ##INFO= ##INFO= @@ -197,7 +195,7 @@ MT 60 . T . . END=60 GT:DP:MIN_DP:TLOD 0/0:2764:2764:-2.446e+00 MT 61 . C . . END=70 GT:DP:MIN_DP:TLOD 0/0:3088:2810:-3.496e+00 MT 71 . G . . END=71 GT:DP:MIN_DP:TLOD 0/0:3322:3322:-3.502e+00 MT 72 . T . . END=72 GT:DP:MIN_DP:TLOD 0/0:3438:3438:-3.382e+00 -MT 73 . A G, . PASS CONTQ=93;DP=2761;ECNT=33;MBQ=29,28,0;MFRL=207,466,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.030,0.022,0.948;TLOD=8376.04,-3.133e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:8,2682,0:0.997,3.683e-04:2690:7,1289,0:1,1393,0 +MT 73 . A G, . PASS CONTQ=93;DP=2761;ECNT=33;MBQ=29,28,0;MFRL=207,466,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=8376.04,-3.133e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:8,2682,0:0.997,3.683e-04:2690:7,1289,0:1,1393,0 MT 74 . T . . END=85 GT:DP:MIN_DP:TLOD 0/0:2926:2718:-3.498e+00 MT 86 . C . . END=86 GT:DP:MIN_DP:TLOD 0/0:3177:3177:-3.503e+00 MT 87 . A . . END=90 GT:DP:MIN_DP:TLOD 0/0:3267:3207:-3.496e+00 @@ -206,86 +204,86 @@ MT 95 . A . . END=95 GT:DP:MIN_DP:TLOD 0/0:3515:3515:-3.474e+00 MT 96 . C . . END=99 GT:DP:MIN_DP:TLOD 0/0:3621:3541:-3.556e+00 MT 100 . G . . END=100 GT:DP:MIN_DP:TLOD 0/0:3697:3697:-3.491e+00 MT 101 . G . . END=106 GT:DP:MIN_DP:TLOD 0/0:3819:3716:-3.585e+00 -MT 107 . G T, . t_lod CONTQ=93;DP=4016;ECNT=33;MBQ=28,23,0;MFRL=447,386,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.492e-04;SAPP=2.556e-04,7.463e-05,1.000;TLOD=-2.986e+00,-3.303e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4012,1,0:3.987e-04,2.490e-04:4013:1934,1,0:2078,0,0:0|1:107_G_T:107 +MT 107 . G T, . t_lod CONTQ=93;DP=4016;ECNT=33;MBQ=28,23,0;MFRL=447,386,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;TLOD=-2.986e+00,-3.303e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4012,1,0:3.987e-04,2.490e-04:4013:1934,1,0:2078,0,0:0|1:107_G_T:107 MT 108 . A . . END=113 GT:DP:MIN_DP:TLOD 0/0:4106:3969:-3.617e+00 MT 114 . C . . END=114 GT:DP:MIN_DP:TLOD 0/0:4258:4258:-3.318e+00 MT 115 . T . . END=115 GT:DP:MIN_DP:TLOD 0/0:4294:4294:-3.632e+00 -MT 116 . A T, . base_quality;t_lod CONTQ=93;DP=4334;ECNT=33;MBQ=29,2,0;MFRL=435,386,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.054e-04;SAPP=1.286e-04,2.451e-04,1.000;TLOD=-3.028e+00,-3.331e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4250,3,0:3.717e-04,2.332e-04:4253:2043,3,0:2207,0,0:0|1:107_G_T:107 +MT 116 . A T, . base_quality;t_lod CONTQ=93;DP=4334;ECNT=33;MBQ=29,2,0;MFRL=435,386,0;MMQ=60,60,0;MPOS=2,0;POPAF=7.30,7.30;TLOD=-3.028e+00,-3.331e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4250,3,0:3.717e-04,2.332e-04:4253:2043,3,0:2207,0,0:0|1:107_G_T:107 MT 117 . T . . END=122 GT:DP:MIN_DP:TLOD 0/0:4463:4372:-3.659e+00 -MT 123 . A C, . base_quality;t_lod CONTQ=93;DP=4584;ECNT=33;MBQ=29,4,0;MFRL=427,16060,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.554e-03;SAPP=9.358e-05,2.005e-03,0.998;TLOD=-3.352e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4497,7,0:2.223e-04,2.208e-04:4504:2185,1,0:2312,6,0 +MT 123 . A C, . base_quality;t_lod CONTQ=93;DP=4584;ECNT=33;MBQ=29,4,0;MFRL=427,16060,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.352e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4497,7,0:2.223e-04,2.208e-04:4504:2185,1,0:2312,6,0 MT 124 . G . . END=135 GT:DP:MIN_DP:TLOD 0/0:4865:4623:-3.697e+00 -MT 136 . G T, . base_quality;t_lod CONTQ=93;DP=5034;ECNT=33;MBQ=28,12,0;MFRL=417,476,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.614e-03;SAPP=1.079e-04,8.898e-04,0.999;TLOD=-3.384e+00,-3.396e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4949,8,0:2.065e-04,2.008e-04:4957:2421,3,0:2528,5,0 +MT 136 . G T, . base_quality;t_lod CONTQ=93;DP=5034;ECNT=33;MBQ=28,12,0;MFRL=417,476,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.384e+00,-3.396e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4949,8,0:2.065e-04,2.008e-04:4957:2421,3,0:2528,5,0 MT 137 . A . . END=140 GT:DP:MIN_DP:TLOD 0/0:5204:5154:-3.716e+00 -MT 141 . C A, . base_quality;t_lod CONTQ=93;DP=5229;ECNT=33;MBQ=29,8,0;MFRL=416,8215,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.884e-04;SAPP=6.308e-05,4.163e-04,1.000;TLOD=-3.412e+00,-3.413e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5147,2,0:1.934e-04,1.931e-04:5149:2516,1,0:2631,1,0 +MT 141 . C A, . base_quality;t_lod CONTQ=93;DP=5229;ECNT=33;MBQ=29,8,0;MFRL=416,8215,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.412e+00,-3.413e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5147,2,0:1.934e-04,1.931e-04:5149:2516,1,0:2631,1,0 MT 142 . T . . END=142 GT:DP:MIN_DP:TLOD 0/0:5344:5344:-3.729e+00 -MT 143 . G A, . t_lod CONTQ=93;DP=5314;ECNT=33;MBQ=29,22,0;MFRL=415,300,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.530e-03;SAPP=4.469e-04,1.298e-04,0.999;TLOD=0.376,-3.420e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5220,8,0:9.496e-04,1.902e-04:5228:2556,5,0:2664,3,0 +MT 143 . G A, . t_lod CONTQ=93;DP=5314;ECNT=33;MBQ=29,22,0;MFRL=415,300,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=0.376,-3.420e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5220,8,0:9.496e-04,1.902e-04:5228:2556,5,0:2664,3,0 MT 144 . C . . END=145 GT:DP:MIN_DP:TLOD 0/0:5462:5441:-3.737e+00 -MT 146 . T C, . t_lod CONTQ=93;DP=5402;ECNT=33;MBQ=28,26,0;MFRL=412,292,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.310e-03;SAPP=1.689e-04,2.636e-04,1.000;TLOD=0.105,-3.428e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5337,7,0:8.726e-04,1.865e-04:5344:2611,5,0:2726,2,0 +MT 146 . T C, . t_lod CONTQ=93;DP=5402;ECNT=33;MBQ=28,26,0;MFRL=412,292,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=0.105,-3.428e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5337,7,0:8.726e-04,1.865e-04:5344:2611,5,0:2726,2,0 MT 147 . C . . END=149 GT:DP:MIN_DP:TLOD 0/0:5581:5579:-3.745e+00 -MT 150 . C T, . PASS CONTQ=93;DP=5525;ECNT=33;MBQ=28,28,0;MFRL=274,412,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.026,0.022,0.951;TLOD=17405.92,-3.436e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:24,5409,0:0.997,1.832e-04:5433:15,2644,0:9,2765,0 +MT 150 . C T, . PASS CONTQ=93;DP=5525;ECNT=33;MBQ=28,28,0;MFRL=274,412,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=17405.92,-3.436e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:24,5409,0:0.997,1.832e-04:5433:15,2644,0:9,2765,0 MT 151 . C . . END=151 GT:DP:MIN_DP:TLOD 0/0:5664:5664:-3.642e+00 -MT 152 . T C, . PASS CONTQ=93;DP=5564;ECNT=33;MBQ=28,29,0;MFRL=540,409,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.033,0.021,0.946;TLOD=23971.11,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5,5509,0:0.999,1.807e-04:5514:2,2700,0:3,2809,0 +MT 152 . T C, . PASS CONTQ=93;DP=5564;ECNT=33;MBQ=28,29,0;MFRL=540,409,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=23971.11,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5,5509,0:0.999,1.807e-04:5514:2,2700,0:3,2809,0 MT 153 . A . . END=162 GT:DP:MIN_DP:TLOD 0/0:5703:5682:-3.749e+00 -MT 163 . G T, . base_quality;t_lod CONTQ=93;DP=5696;ECNT=33;MBQ=25,13,0;MFRL=392,484,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.085e-03;SAPP=4.494e-04,1.061e-04,0.999;TLOD=-3.444e+00,-3.446e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5523,6,0:1.801e-04,1.792e-04:5529:2707,3,0:2816,3,0 +MT 163 . G T, . base_quality;t_lod CONTQ=93;DP=5696;ECNT=33;MBQ=25,13,0;MFRL=392,484,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.444e+00,-3.446e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5523,6,0:1.801e-04,1.792e-04:5529:2707,3,0:2816,3,0 MT 164 . C . . END=164 GT:DP:MIN_DP:TLOD 0/0:5721:5721:-3.733e+00 -MT 165 . A C, . base_quality;t_lod CONTQ=93;DP=5678;ECNT=33;MBQ=28,8,0;MFRL=390,402,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.520e-03;SAPP=2.760e-04,5.338e-04,0.999;TLOD=-3.397e+00,-3.445e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5506,25,0:2.011e-04,1.796e-04:5531:2702,12,0:2804,13,0 +MT 165 . A C, . base_quality;t_lod CONTQ=93;DP=5678;ECNT=33;MBQ=28,8,0;MFRL=390,402,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.397e+00,-3.445e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5506,25,0:2.011e-04,1.796e-04:5531:2702,12,0:2804,13,0 MT 166 . C . . END=184 GT:DP:MIN_DP:TLOD 0/0:5735:5672:-3.756e+00 -MT 185 . G T, . base_quality;t_lod CONTQ=93;DP=5738;ECNT=33;MBQ=28,12,0;MFRL=364,331,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.954e-04;SAPP=2.439e-04,1.215e-04,1.000;TLOD=-3.417e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5579,5,0:1.918e-04,1.774e-04:5584:2715,1,0:2864,4,0 +MT 185 . G T, . base_quality;t_lod CONTQ=93;DP=5738;ECNT=33;MBQ=28,12,0;MFRL=364,331,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.417e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5579,5,0:1.918e-04,1.774e-04:5584:2715,1,0:2864,4,0 MT 186 . C . . END=186 GT:DP:MIN_DP:TLOD 0/0:5738:5738:-3.554e+00 -MT 187 . G T, . base_quality;t_lod CONTQ=93;DP=5740;ECNT=33;MBQ=25,5,0;MFRL=362,8166,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.585e-04;SAPP=5.687e-05,4.131e-04,1.000;TLOD=-3.447e+00,-3.449e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5577,2,0:1.787e-04,1.778e-04:5579:2708,2,0:2869,0,0 +MT 187 . G T, . base_quality;t_lod CONTQ=93;DP=5740;ECNT=33;MBQ=25,5,0;MFRL=362,8166,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.447e+00,-3.449e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5577,2,0:1.787e-04,1.778e-04:5579:2708,2,0:2869,0,0 MT 188 . A . . END=188 GT:DP:MIN_DP:TLOD 0/0:5762:5762:-3.748e+00 -MT 189 . A C,G, . t_lod CONTQ=93;DP=5765;ECNT=33;MBQ=29,4,29,0;MFRL=359,390,303,0;MMQ=60,60,60,0;MPOS=22,41,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.010,3.580e-04;SAPP=4.305e-04,5.582e-05,1.000;TLOD=-3.228e+00,-3.045e+00,-3.275e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5584,14,2,0:1.973e-04,2.855e-04,1.768e-04:5600:2715,5,2,0:2869,9,0,0 -MT 190 . C A, . base_quality;t_lod CONTQ=93;DP=5774;ECNT=33;MBQ=28,2,0;MFRL=358,332,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.917e-04;SAPP=1.256e-04,2.299e-04,1.000;TLOD=-3.435e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5602,5,0:1.839e-04,1.764e-04:5607:2726,4,0:2876,1,0 +MT 189 . A C,G, . t_lod CONTQ=93;DP=5765;ECNT=33;MBQ=29,4,29,0;MFRL=359,390,303,0;MMQ=60,60,60,0;MPOS=22,41,0;POPAF=7.30,7.30,7.30;TLOD=-3.228e+00,-3.045e+00,-3.275e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5584,14,2,0:1.973e-04,2.855e-04,1.768e-04:5600:2715,5,2,0:2869,9,0,0 +MT 190 . C A, . base_quality;t_lod CONTQ=93;DP=5774;ECNT=33;MBQ=28,2,0;MFRL=358,332,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.435e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5602,5,0:1.839e-04,1.764e-04:5607:2726,4,0:2876,1,0 MT 191 . A . . END=193 GT:DP:MIN_DP:TLOD 0/0:5786:5786:-3.698e+00 -MT 194 . C CCTCCTAAAGTGTG, . t_lod CONTQ=93;DP=5780;ECNT=33;MBQ=28,22,0;MFRL=347,401,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.010,7.124e-04;SAPP=1.511e-03,5.710e-05,0.998;TLOD=-3.453e+00,-3.454e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5611,4,0:1.763e-04,1.758e-04:5615:2751,1,0:2860,3,0:0|1:194_C_CCTCCTAAAGTGTG:194 -MT 195 . T C,A, . PASS CONTQ=93;DP=5780;ECNT=33;MBQ=28,29,12,0;MFRL=347,348,275,0;MMQ=60,60,60,0;MPOS=37,12,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.016,0.043,0.942;TLOD=18094.06,-3.277e+00,-3.278e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:19,5544,3,0:0.998,1.763e-04,1.759e-04:5566:8,2717,1,0:11,2827,2,0 -MT 196 . T TAATTA, . base_quality;t_lod CONTQ=93;DP=5798;ECNT=33;MBQ=29,0,0;MFRL=347,367,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.053e-03;SAPP=1.051e-03,7.677e-05,0.999;TLOD=-3.456e+00,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5691,6,0:1.750e-04,1.742e-04:5697:2787,1,0:2904,5,0:0|1:194_C_CCTCCTAAAGTGTG:194 +MT 194 . C CCTCCTAAAGTGTG, . t_lod CONTQ=93;DP=5780;ECNT=33;MBQ=28,22,0;MFRL=347,401,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.453e+00,-3.454e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5611,4,0:1.763e-04,1.758e-04:5615:2751,1,0:2860,3,0:0|1:194_C_CCTCCTAAAGTGTG:194 +MT 195 . T C,A, . PASS CONTQ=93;DP=5780;ECNT=33;MBQ=28,29,12,0;MFRL=347,348,275,0;MMQ=60,60,60,0;MPOS=37,12,0;POPAF=7.30,7.30,7.30;TLOD=18094.06,-3.277e+00,-3.278e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:19,5544,3,0:0.998,1.763e-04,1.759e-04:5566:8,2717,1,0:11,2827,2,0 +MT 196 . T TAATTA, . base_quality;t_lod CONTQ=93;DP=5798;ECNT=33;MBQ=29,0,0;MFRL=347,367,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.456e+00,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5691,6,0:1.750e-04,1.742e-04:5697:2787,1,0:2904,5,0:0|1:194_C_CCTCCTAAAGTGTG:194 MT 197 . A . . END=197 GT:DP:MIN_DP:TLOD 0/0:5833:5833:-3.736e+00 -MT 198 . C T, . base_quality;t_lod CONTQ=93;DP=5810;ECNT=33;MBQ=28,2,0;MFRL=347,344,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.757e-04;SAPP=5.440e-05,1.655e-04,1.000;TLOD=-3.458e+00,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5690,1,0:1.742e-04,1.740e-04:5691:2791,0,0:2899,1,0:0|1:194_C_CCTCCTAAAGTGTG:194 -MT 199 . T C, . t_lod CONTQ=93;DP=5819;ECNT=33;MBQ=29,29,0;MFRL=346,297,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.438e-04;SAPP=1.107e-04,1.201e-04,1.000;TLOD=-1.695e+00,-3.464e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5815,2,0:4.888e-04,1.719e-04:5817:2847,1,0:2968,1,0:0|1:199_T_C:199 -MT 200 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5824;ECNT=33;MBQ=29,0,0;MFRL=346,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=5.346e-05,5.626e-05,1.000;TLOD=-3.461e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5747,0,0:1.730e-04,1.730e-04:5747:2814,0,0:2933,0,0 -MT 201 . A C, . base_quality;t_lod CONTQ=93;DP=5827;ECNT=33;MBQ=29,6,0;MFRL=344,474,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.293e-03;SAPP=3.111e-04,2.314e-04,0.999;TLOD=-3.452e+00,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5657,13,0:1.766e-04,1.748e-04:5670:2774,6,0:2883,7,0 +MT 198 . C T, . base_quality;t_lod CONTQ=93;DP=5810;ECNT=33;MBQ=28,2,0;MFRL=347,344,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.458e+00,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5690,1,0:1.742e-04,1.740e-04:5691:2791,0,0:2899,1,0:0|1:194_C_CCTCCTAAAGTGTG:194 +MT 199 . T C, . t_lod CONTQ=93;DP=5819;ECNT=33;MBQ=29,29,0;MFRL=346,297,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-1.695e+00,-3.464e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5815,2,0:4.888e-04,1.719e-04:5817:2847,1,0:2968,1,0:0|1:199_T_C:199 +MT 200 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5824;ECNT=33;MBQ=29,0,0;MFRL=346,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.461e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5747,0,0:1.730e-04,1.730e-04:5747:2814,0,0:2933,0,0 +MT 201 . A C, . base_quality;t_lod CONTQ=93;DP=5827;ECNT=33;MBQ=29,6,0;MFRL=344,474,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.452e+00,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5657,13,0:1.766e-04,1.748e-04:5670:2774,6,0:2883,7,0 MT 202 . A . . END=202 GT:DP:MIN_DP:TLOD 0/0:5838:5838:-3.641e+00 -MT 203 . G T, . base_quality;t_lod CONTQ=93;DP=5838;ECNT=33;MBQ=28,12,0;MFRL=343,319,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.057e-03;SAPP=3.559e-04,1.154e-04,1.000;TLOD=-3.451e+00,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5669,6,0:1.770e-04,1.745e-04:5675:2778,3,0:2891,3,0 -MT 204 . T C, . t_lod CONTQ=93;DP=5842;ECNT=33;MBQ=29,23,0;MFRL=343,297,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.475e-04;SAPP=1.124e-04,1.202e-04,1.000;TLOD=-1.685e+00,-3.462e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5754,2,0:4.930e-04,1.726e-04:5756:2822,1,0:2932,1,0:0|1:199_T_C:199 +MT 203 . G T, . base_quality;t_lod CONTQ=93;DP=5838;ECNT=33;MBQ=28,12,0;MFRL=343,319,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.451e+00,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5669,6,0:1.770e-04,1.745e-04:5675:2778,3,0:2891,3,0 +MT 204 . T C, . t_lod CONTQ=93;DP=5842;ECNT=33;MBQ=29,23,0;MFRL=343,297,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-1.685e+00,-3.462e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5754,2,0:4.930e-04,1.726e-04:5756:2822,1,0:2932,1,0:0|1:199_T_C:199 MT 205 . G . . END=208 GT:DP:MIN_DP:TLOD 0/0:5861:5845:-3.764e+00 -MT 209 . T G, . base_quality;t_lod CONTQ=93;DP=5874;ECNT=33;MBQ=29,15,0;MFRL=341,8164,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.454e-04;SAPP=5.262e-05,4.444e-04,1.000;TLOD=-3.462e+00,-3.464e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5788,2,0:1.725e-04,1.717e-04:5790:2831,2,0:2957,0,0 -MT 210 . A C, . base_quality;t_lod CONTQ=93;DP=5881;ECNT=33;MBQ=29,10,0;MFRL=340,309,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.096e-03;SAPP=4.863e-03,8.109e-05,0.995;TLOD=-3.300e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5714,12,0:2.498e-04,1.730e-04:5726:2804,4,0:2910,8,0 +MT 209 . T G, . base_quality;t_lod CONTQ=93;DP=5874;ECNT=33;MBQ=29,15,0;MFRL=341,8164,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.462e+00,-3.464e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5788,2,0:1.725e-04,1.717e-04:5790:2831,2,0:2957,0,0 +MT 210 . A C, . base_quality;t_lod CONTQ=93;DP=5881;ECNT=33;MBQ=29,10,0;MFRL=340,309,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.300e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5714,12,0:2.498e-04,1.730e-04:5726:2804,4,0:2910,8,0 MT 211 . A . . END=213 GT:DP:MIN_DP:TLOD 0/0:5895:5890:-3.769e+00 -MT 214 . A C, . base_quality;t_lod CONTQ=93;DP=5909;ECNT=33;MBQ=29,6,0;MFRL=338,311,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.439e-04;SAPP=5.183e-05,4.557e-04,0.999;TLOD=-3.466e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5814,2,0:1.711e-04,1.708e-04:5816:2840,1,0:2974,1,0 -MT 215 . A C,T, . t_lod CONTQ=93;DP=5916;ECNT=33;MBQ=29,20,0,0;MFRL=339,312,0,0;MMQ=60,60,0,0;MPOS=22,0,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.434e-04;SAPP=1.083e-04,1.228e-04,1.000;TLOD=-3.267e+00,-3.291e+00,-3.291e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5822,2,0,0:1.804e-04,1.705e-04,1.705e-04:5824:2842,2,0,0:2980,0,0,0 +MT 214 . A C, . base_quality;t_lod CONTQ=93;DP=5909;ECNT=33;MBQ=29,6,0;MFRL=338,311,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.466e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5814,2,0:1.711e-04,1.708e-04:5816:2840,1,0:2974,1,0 +MT 215 . A C,T, . t_lod CONTQ=93;DP=5916;ECNT=33;MBQ=29,20,0,0;MFRL=339,312,0,0;MMQ=60,60,0,0;MPOS=22,0,0;POPAF=7.30,7.30,7.30;TLOD=-3.267e+00,-3.291e+00,-3.291e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5822,2,0,0:1.804e-04,1.705e-04,1.705e-04:5824:2842,2,0,0:2980,0,0,0 MT 216 . T . . END=218 GT:DP:MIN_DP:TLOD 0/0:5926:5922:-3.772e+00 -MT 219 . A C, . base_quality;t_lod CONTQ=93;DP=5931;ECNT=33;MBQ=29,8,0;MFRL=337,404,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.636e-03;SAPP=1.184e-04,2.658e-03,0.997;TLOD=-3.428e+00,-3.464e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5754,21,0:1.872e-04,1.718e-04:5775:2809,14,0:2945,7,0 +MT 219 . A C, . base_quality;t_lod CONTQ=93;DP=5931;ECNT=33;MBQ=29,8,0;MFRL=337,404,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.428e+00,-3.464e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5754,21,0:1.872e-04,1.718e-04:5775:2809,14,0:2945,7,0 MT 220 . T . . END=222 GT:DP:MIN_DP:TLOD 0/0:5909:5903:-3.770e+00 MT 223 . T . . END=223 GT:DP:MIN_DP:TLOD 0/0:5931:5931:-3.459e+00 -MT 224 . T G, . base_quality;t_lod CONTQ=93;DP=5952;ECNT=33;MBQ=29,9,0;MFRL=334,287,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.038e-03;SAPP=3.129e-04,1.212e-04,1.000;TLOD=-3.463e+00,-3.466e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5773,6,0:1.723e-04,1.711e-04:5779:2816,4,0:2957,2,0 -MT 225 . G T, . base_quality;t_lod CONTQ=93;DP=5947;ECNT=33;MBQ=28,11,0;MFRL=333,429,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.180e-04;SAPP=6.661e-04,5.814e-05,0.999;TLOD=-3.452e+00,-3.466e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5788,3,0:1.764e-04,1.711e-04:5791:2823,2,0:2965,1,0 +MT 224 . T G, . base_quality;t_lod CONTQ=93;DP=5952;ECNT=33;MBQ=29,9,0;MFRL=334,287,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.463e+00,-3.466e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5773,6,0:1.723e-04,1.711e-04:5779:2816,4,0:2957,2,0 +MT 225 . G T, . base_quality;t_lod CONTQ=93;DP=5947;ECNT=33;MBQ=28,11,0;MFRL=333,429,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.452e+00,-3.466e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5788,3,0:1.764e-04,1.711e-04:5791:2823,2,0:2965,1,0 MT 226 . T . . END=226 GT:DP:MIN_DP:TLOD 0/0:5954:5954:-3.404e+00 MT 227 . A . . END=227 GT:DP:MIN_DP:TLOD 0/0:5956:5956:-3.775e+00 -MT 228 . G T, . base_quality;t_lod CONTQ=93;DP=5965;ECNT=33;MBQ=28,11,0;MFRL=333,415,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.207e-03;SAPP=1.469e-03,7.641e-05,0.998;TLOD=-3.359e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5792,7,0:2.147e-04,1.707e-04:5799:2822,6,0:2970,1,0 +MT 228 . G T, . base_quality;t_lod CONTQ=93;DP=5965;ECNT=33;MBQ=28,11,0;MFRL=333,415,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.359e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5792,7,0:2.147e-04,1.707e-04:5799:2822,6,0:2970,1,0 MT 229 . G . . END=241 GT:DP:MIN_DP:TLOD 0/0:7062:6996:-3.804e+00 -MT 242 . C A, . base_quality;t_lod CONTQ=93;DP=4610;ECNT=24;MBQ=28,15,0;MFRL=328,391,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.006e-03;SAPP=5.264e-03,8.799e-05,0.995;TLOD=-3.011e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4477,9,0:4.325e-04,2.208e-04:4486:2206,3,0:2271,6,0 +MT 242 . C A, . base_quality;t_lod CONTQ=93;DP=4610;ECNT=24;MBQ=28,15,0;MFRL=328,391,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.011e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4477,9,0:4.325e-04,2.208e-04:4486:2206,3,0:2271,6,0 MT 243 . A . . END=248 GT:DP:MIN_DP:TLOD 0/0:4519:4440:-3.634e+00 -MT 249 . A C, . base_quality;t_lod CONTQ=93;DP=4438;ECNT=24;MBQ=29,7,0;MFRL=326,369,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.638e-03;SAPP=1.593e-04,7.496e-03,0.992;TLOD=-3.328e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4292,20,0:2.352e-04,2.302e-04:4312:2080,12,0:2212,8,0 +MT 249 . A C, . base_quality;t_lod CONTQ=93;DP=4438;ECNT=24;MBQ=29,7,0;MFRL=326,369,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.328e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4292,20,0:2.352e-04,2.302e-04:4312:2080,12,0:2212,8,0 MT 250 . T . . END=250 GT:DP:MIN_DP:TLOD 0/0:4380:4380:-3.127e+00 -MT 251 . G T, . base_quality;t_lod CONTQ=93;DP=4401;ECNT=24;MBQ=27,13,0;MFRL=325,373,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.868e-03;SAPP=0.105,5.597e-05,0.895;TLOD=-3.187e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4274,8,0:3.233e-04,2.319e-04:4282:2072,4,0:2202,4,0 +MT 251 . G T, . base_quality;t_lod CONTQ=93;DP=4401;ECNT=24;MBQ=27,13,0;MFRL=325,373,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.187e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4274,8,0:3.233e-04,2.319e-04:4282:2072,4,0:2202,4,0 MT 252 . T . . END=252 GT:DP:MIN_DP:TLOD 0/0:4324:4324:-3.617e+00 MT 253 . C . . END=253 GT:DP:MIN_DP:TLOD 0/0:4327:4327:-3.421e+00 MT 254 . T . . END=254 GT:DP:MIN_DP:TLOD 0/0:4294:4294:-3.620e+00 MT 255 . G . . END=255 GT:DP:MIN_DP:TLOD 0/0:4246:4246:-3.347e+00 MT 256 . C . . END=259 GT:DP:MIN_DP:TLOD 0/0:4197:4155:-3.609e+00 -MT 260 . G T, . base_quality;t_lod CONTQ=93;DP=4217;ECNT=24;MBQ=28,12,0;MFRL=321,320,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.472e-03;SAPP=0.252,4.051e-05,0.748;TLOD=-3.239e+00,-3.314e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4070,6,0:2.867e-04,2.427e-04:4076:1956,5,0:2114,1,0 +MT 260 . G T, . base_quality;t_lod CONTQ=93;DP=4217;ECNT=24;MBQ=28,12,0;MFRL=321,320,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.239e+00,-3.314e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4070,6,0:2.867e-04,2.427e-04:4076:1956,5,0:2114,1,0 MT 261 . C . . END=262 GT:DP:MIN_DP:TLOD 0/0:4143:4135:-3.616e+00 -MT 263 . A G, . PASS CONTQ=93;DP=4139;ECNT=24;MBQ=0,28,0;MFRL=0,322,0;MMQ=0,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.990,0.990,1.00;SAPP=0.026,0.028,0.946;TLOD=12281.25,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:0,4016,0:1.000,2.469e-04:4016:0,1932,0:0,2084,0 +MT 263 . A G, . PASS CONTQ=93;DP=4139;ECNT=24;MBQ=0,28,0;MFRL=0,322,0;MMQ=0,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=12281.25,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:0,4016,0:1.000,2.469e-04:4016:0,1932,0:0,2084,0 MT 264 . C . . END=264 GT:DP:MIN_DP:TLOD 0/0:4071:4071:-3.606e+00 MT 265 . T . . END=266 GT:DP:MIN_DP:TLOD 0/0:4034:4019:-3.455e+00 -MT 267 . T C, . base_quality;t_lod CONTQ=93;DP=4036;ECNT=24;MBQ=28,8,0;MFRL=320,368,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.612e-03;SAPP=3.057e-04,1.043e-03,0.999;TLOD=-3.278e+00,-3.294e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3885,18,0:2.638e-04,2.539e-04:3903:1841,13,0:2044,5,0 +MT 267 . T C, . base_quality;t_lod CONTQ=93;DP=4036;ECNT=24;MBQ=28,8,0;MFRL=320,368,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.278e+00,-3.294e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3885,18,0:2.638e-04,2.539e-04:3903:1841,13,0:2044,5,0 MT 268 . C . . END=268 GT:DP:MIN_DP:TLOD 0/0:3988:3988:-3.584e+00 MT 269 . C . . END=269 GT:DP:MIN_DP:TLOD 0/0:3964:3964:-3.423e+00 MT 270 . A . . END=273 GT:DP:MIN_DP:TLOD 0/0:3887:3853:-3.589e+00 MT 274 . A . . END=274 GT:DP:MIN_DP:TLOD 0/0:3802:3802:-3.330e+00 MT 275 . G . . END=277 GT:DP:MIN_DP:TLOD 0/0:3746:3714:-3.567e+00 -MT 278 . A C, . base_quality;t_lod CONTQ=93;DP=3789;ECNT=24;MBQ=29,4,0;MFRL=317,377,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.734e-03;SAPP=0.026,9.815e-05,0.974;TLOD=-3.262e+00,-3.267e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3647,10,0:2.735e-04,2.701e-04:3657:1687,4,0:1960,6,0 +MT 278 . A C, . base_quality;t_lod CONTQ=93;DP=3789;ECNT=24;MBQ=29,4,0;MFRL=317,377,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.262e+00,-3.267e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3647,10,0:2.735e-04,2.701e-04:3657:1687,4,0:1960,6,0 MT 279 . T . . END=279 GT:DP:MIN_DP:TLOD 0/0:3654:3654:-3.452e+00 MT 280 . C . . END=283 GT:DP:MIN_DP:TLOD 0/0:3612:3589:-3.564e+00 MT 284 . A . . END=284 GT:DP:MIN_DP:TLOD 0/0:3581:3581:-3.438e+00 @@ -294,44 +292,44 @@ MT 286 . A . . END=286 GT:DP:MIN_DP:TLOD 0/0:3544:3544:-3.341e+00 MT 287 . A . . END=287 GT:DP:MIN_DP:TLOD 0/0:3513:3513:-3.540e+00 MT 288 . A . . END=290 GT:DP:MIN_DP:TLOD 0/0:3465:3427:-3.500e+00 MT 291 . A . . END=291 GT:DP:MIN_DP:TLOD 0/0:3376:3376:-3.512e+00 -MT 292 . T A, . base_quality;t_lod CONTQ=93;DP=3553;ECNT=24;MBQ=28,2,0;MFRL=315,383,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.140e-03;SAPP=1.000,3.750e-11,6.311e-07;TLOD=-3.225e+00,-3.233e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3368,14,0:2.978e-04,2.924e-04:3382:1499,6,0:1869,8,0 +MT 292 . T A, . base_quality;t_lod CONTQ=93;DP=3553;ECNT=24;MBQ=28,2,0;MFRL=315,383,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.225e+00,-3.233e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3368,14,0:2.978e-04,2.924e-04:3382:1499,6,0:1869,8,0 MT 293 . T . . END=294 GT:DP:MIN_DP:TLOD 0/0:3268:3252:-3.347e+00 MT 295 . C . . END=295 GT:DP:MIN_DP:TLOD 0/0:3326:3326:-3.502e+00 -MT 296 . C T, . base_quality;t_lod CONTQ=93;DP=3501;ECNT=24;MBQ=28,12,0;MFRL=315,293,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.194e-03;SAPP=5.702e-03,9.588e-05,0.994;TLOD=-3.229e+00,-3.231e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3346,4,0:2.952e-04,2.936e-04:3350:1472,2,0:1874,2,0 +MT 296 . C T, . base_quality;t_lod CONTQ=93;DP=3501;ECNT=24;MBQ=28,12,0;MFRL=315,293,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.229e+00,-3.231e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3346,4,0:2.952e-04,2.936e-04:3350:1472,2,0:1874,2,0 MT 297 . A . . END=297 GT:DP:MIN_DP:TLOD 0/0:3264:3264:-2.819e+00 MT 298 . C . . END=298 GT:DP:MIN_DP:TLOD 0/0:3259:3259:-3.511e+00 MT 299 . C . . END=301 GT:DP:MIN_DP:TLOD 0/0:3236:3164:-3.495e+00 -MT 302 . A C,AC, . base_quality CONTQ=93;DP=3411;ECNT=24;MBQ=16,5,26,0;MFRL=316,312,329,0;MMQ=60,60,60,0;MPOS=29,12,0;POPAF=7.30,7.30,7.30;SAAF=0.141,0.020,0.136;SAPP=2.788e-08,1.000,2.804e-05;TLOD=41.20,5.66,-3.034e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:2424,383,36,0:0.055,6.293e-03,3.086e-04:2843:958,211,20,0:1466,172,16,0 +MT 302 . A C,AC, . base_quality CONTQ=93;DP=3411;ECNT=24;MBQ=16,5,26,0;MFRL=316,312,329,0;MMQ=60,60,60,0;MPOS=29,12,0;POPAF=7.30,7.30,7.30;TLOD=41.20,5.66,-3.034e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:2424,383,36,0:0.055,6.293e-03,3.086e-04:2843:958,211,20,0:1466,172,16,0 MT 303 . C . . END=303 GT:DP:MIN_DP:TLOD 0/0:3165:3165:-3.474e+00 -MT 304 . C A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3417;ECNT=24;MBQ=28,14,0;MFRL=315,311,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;SAAF=0.00,0.010,3.953e-03;SAPP=1.000,1.346e-14,2.523e-10;TLOD=-3.188e+00,-3.222e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3276,13,0:3.253e-04,3.003e-04:3289:1410,6,0:1866,7,0 -MT 305 . C CA,CCA, . base_quality;contamination;t_lod CONTQ=1;DP=3420;ECNT=24;MBQ=28,2,0,0;MFRL=315,390,0,0;MMQ=60,60,0,0;MPOS=8,0,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.871e-04,5.460e-05,0.999;TLOD=-3.043e+00,-3.041e+00,-3.044e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3202,1,0,0:3.018e-04,3.032e-04,3.011e-04:3203:1363,1,0,0:1839,0,0,0 -MT 306 . C A,CA, . base_quality;t_lod CONTQ=93;DP=3451;ECNT=24;MBQ=28,13,17,0;MFRL=315,369,383,0;MMQ=60,60,60,0;MPOS=22,13,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.545e-03;SAPP=1.341e-03,1.898e-04,0.998;TLOD=-3.005e+00,-3.044e+00,-3.048e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3232,5,2,0:3.297e-04,3.014e-04,2.985e-04:3239:1382,2,1,0:1850,3,1,0 +MT 304 . C A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3417;ECNT=24;MBQ=28,14,0;MFRL=315,311,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;TLOD=-3.188e+00,-3.222e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3276,13,0:3.253e-04,3.003e-04:3289:1410,6,0:1866,7,0 +MT 305 . C CA,CCA, . base_quality;contamination;t_lod CONTQ=1;DP=3420;ECNT=24;MBQ=28,2,0,0;MFRL=315,390,0,0;MMQ=60,60,0,0;MPOS=8,0,0;POPAF=7.30,7.30,7.30;TLOD=-3.043e+00,-3.041e+00,-3.044e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3202,1,0,0:3.018e-04,3.032e-04,3.011e-04:3203:1363,1,0,0:1839,0,0,0 +MT 306 . C A,CA, . base_quality;t_lod CONTQ=93;DP=3451;ECNT=24;MBQ=28,13,17,0;MFRL=315,369,383,0;MMQ=60,60,60,0;MPOS=22,13,0;POPAF=7.30,7.30,7.30;TLOD=-3.005e+00,-3.044e+00,-3.048e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3232,5,2,0:3.297e-04,3.014e-04,2.985e-04:3239:1382,2,1,0:1850,3,1,0 MT 307 . C . . END=308 GT:DP:MIN_DP:TLOD 0/0:3123:3119:-3.489e+00 -MT 309 . C CA, . t_lod CONTQ=93;DP=3436;ECNT=24;MBQ=27,22,0;MFRL=315,371,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.830e-03;SAPP=0.153,1.132e-04,0.846;TLOD=-3.197e+00,-3.205e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3121,12,0:3.181e-04,3.123e-04:3133:1320,6,0:1801,6,0 -MT 310 . T TC,C, . PASS CONTQ=93;DP=3391;ECNT=24;MBQ=6,25,13,0;MFRL=355,319,371,0;MMQ=60,60,60,0;MPOS=35,7,0;POPAF=7.30,7.30,7.30;SAAF=0.970,0.707,0.973;SAPP=0.00,1.00,0.00;TLOD=7224.99,-3.013e+00,-3.036e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:78,2810,12,0:0.986,3.243e-04,3.071e-04:2900:41,1154,6,0:37,1656,6,0 +MT 309 . C CA, . t_lod CONTQ=93;DP=3436;ECNT=24;MBQ=27,22,0;MFRL=315,371,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.197e+00,-3.205e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3121,12,0:3.181e-04,3.123e-04:3133:1320,6,0:1801,6,0 +MT 310 . T TC,C, . PASS CONTQ=93;DP=3391;ECNT=24;MBQ=6,25,13,0;MFRL=355,319,371,0;MMQ=60,60,60,0;MPOS=35,7,0;POPAF=7.30,7.30,7.30;TLOD=7224.99,-3.013e+00,-3.036e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:78,2810,12,0:0.986,3.243e-04,3.071e-04:2900:41,1154,6,0:37,1656,6,0 MT 311 . C . . END=311 GT:DP:MIN_DP:TLOD 0/0:3109:3109:-3.506e+00 MT 312 . C . . END=315 GT:DP:MIN_DP:TLOD 0/0:3139:3118:-3.457e+00 -MT 316 . G C, . strand_artifact CONTQ=93;DP=3447;ECNT=24;MBQ=28,22,0;MFRL=317,361,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.00,0.020,0.022;SAPP=1.00,0.00,0.00;TLOD=24.36,-3.225e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3249,74,0:0.011,2.980e-04:3323:1352,40,0:1897,34,0:0|1:316_G_C:316 -MT 317 . CTT C, . base_quality;strand_artifact CONTQ=93;DP=3525;ECNT=24;MBQ=28,2,0;MFRL=317,361,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;SAAF=0.00,0.020,0.022;SAPP=1.00,0.00,0.00;TLOD=23.83,-3.237e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3361,74,0:0.011,2.896e-04:3435:1397,40,0:1964,34,0:0|1:316_G_C:316 -MT 320 . CTGG C, . base_quality;strand_artifact CONTQ=93;DP=3569;ECNT=24;MBQ=28,2,0;MFRL=318,370,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.020,0.019;SAPP=1.00,0.00,0.00;TLOD=19.73,-3.248e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3490,69,0:9.096e-03,2.822e-04:3559:1444,38,0:2046,31,0:0|1:316_G_C:316 +MT 316 . G C, . strand_artifact CONTQ=93;DP=3447;ECNT=24;MBQ=28,22,0;MFRL=317,361,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=24.36,-3.225e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3249,74,0:0.011,2.980e-04:3323:1352,40,0:1897,34,0:0|1:316_G_C:316 +MT 317 . CTT C, . base_quality;strand_artifact CONTQ=93;DP=3525;ECNT=24;MBQ=28,2,0;MFRL=317,361,0;MMQ=60,60,0;MPOS=3,0;POPAF=7.30,7.30;TLOD=23.83,-3.237e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3361,74,0:0.011,2.896e-04:3435:1397,40,0:1964,34,0:0|1:316_G_C:316 +MT 320 . CTGG C, . base_quality;strand_artifact CONTQ=93;DP=3569;ECNT=24;MBQ=28,2,0;MFRL=318,370,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=19.73,-3.248e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3490,69,0:9.096e-03,2.822e-04:3559:1444,38,0:2046,31,0:0|1:316_G_C:316 MT 324 . C . . END=325 GT:DP:MIN_DP:TLOD 0/0:3343:3329:-3.463e+00 -MT 326 . A C, . base_quality CONTQ=93;DP=3565;ECNT=24;MBQ=29,2,0;MFRL=317,362,0;MMQ=60,60,0;MPOS=-4,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.018;SAPP=1.00,0.00,0.00;TLOD=21.06,-3.243e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3415,63,0:9.006e-03,2.858e-04:3478:1414,41,0:2001,22,0:0|1:316_G_C:316 +MT 326 . A C, . base_quality CONTQ=93;DP=3565;ECNT=24;MBQ=29,2,0;MFRL=317,362,0;MMQ=60,60,0;MPOS=-4,0;POPAF=7.30,7.30;TLOD=21.06,-3.243e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3415,63,0:9.006e-03,2.858e-04:3478:1414,41,0:2001,22,0:0|1:316_G_C:316 MT 327 . C . . END=327 GT:DP:MIN_DP:TLOD 0/0:3397:3397:-3.534e+00 MT 328 . A . . END=328 GT:DP:MIN_DP:TLOD 0/0:3413:3413:-3.423e+00 MT 329 . G . . END=335 GT:DP:MIN_DP:TLOD 0/0:3519:3421:-3.548e+00 -MT 336 . A C, . base_quality;t_lod CONTQ=93;DP=3757;ECNT=24;MBQ=28,10,0;MFRL=317,314,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.588e-03;SAPP=2.015e-04,5.527e-03,0.994;TLOD=-3.061e+00,-3.264e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3610,13,0:4.089e-04,2.725e-04:3623:1499,9,0:2111,4,0 +MT 336 . A C, . base_quality;t_lod CONTQ=93;DP=3757;ECNT=24;MBQ=28,10,0;MFRL=317,314,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.061e+00,-3.264e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3610,13,0:4.089e-04,2.725e-04:3623:1499,9,0:2111,4,0 MT 337 . A . . END=337 GT:DP:MIN_DP:TLOD 0/0:3618:3618:-3.335e+00 MT 338 . C . . END=338 GT:DP:MIN_DP:TLOD 0/0:3649:3649:-3.557e+00 MT 339 . A . . END=339 GT:DP:MIN_DP:TLOD 0/0:3653:3653:-3.341e+00 MT 340 . C . . END=344 GT:DP:MIN_DP:TLOD 0/0:3722:3680:-3.572e+00 MT 345 . C . . END=348 GT:DP:MIN_DP:TLOD 0/0:3851:3831:-3.496e+00 MT 349 . C . . END=353 GT:DP:MIN_DP:TLOD 0/0:3989:3933:-3.597e+00 -MT 354 . C A, . base_quality;t_lod CONTQ=93;DP=4166;ECNT=24;MBQ=28,12,0;MFRL=321,347,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.00,7.406e-04;SAPP=1.323e-04,3.914e-04,0.999;TLOD=-3.310e+00,-3.311e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4048,3,0:2.449e-04,2.441e-04:4051:1700,0,0:2348,3,0 -MT 355 . C A, . base_quality;t_lod CONTQ=93;DP=4189;ECNT=24;MBQ=28,13,0;MFRL=322,304,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.00,9.818e-04;SAPP=1.283e-04,6.354e-04,0.999;TLOD=-3.305e+00,-3.314e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4070,4,0:2.480e-04,2.428e-04:4074:1711,4,0:2359,0,0 +MT 354 . C A, . base_quality;t_lod CONTQ=93;DP=4166;ECNT=24;MBQ=28,12,0;MFRL=321,347,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.310e+00,-3.311e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4048,3,0:2.449e-04,2.441e-04:4051:1700,0,0:2348,3,0 +MT 355 . C A, . base_quality;t_lod CONTQ=93;DP=4189;ECNT=24;MBQ=28,13,0;MFRL=322,304,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.305e+00,-3.314e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4070,4,0:2.480e-04,2.428e-04:4074:1711,4,0:2359,0,0 MT 356 . C . . END=357 GT:DP:MIN_DP:TLOD 0/0:4119:4109:-3.614e+00 -MT 358 . A C, . base_quality;t_lod CONTQ=93;DP=4255;ECNT=24;MBQ=28,8,0;MFRL=322,301,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.411e-03;SAPP=2.242e-04,5.955e-04,0.999;TLOD=-3.270e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4138,10,0:2.684e-04,2.392e-04:4148:1744,3,0:2394,7,0 +MT 358 . A C, . base_quality;t_lod CONTQ=93;DP=4255;ECNT=24;MBQ=28,8,0;MFRL=322,301,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.270e+00,-3.320e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4138,10,0:2.684e-04,2.392e-04:4148:1744,3,0:2394,7,0 MT 359 . A . . END=359 GT:DP:MIN_DP:TLOD 0/0:4178:4178:-3.608e+00 -MT 360 . A C, . base_quality;t_lod CONTQ=93;DP=4300;ECNT=24;MBQ=28,8,0;MFRL=321,355,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.581e-03;SAPP=1.710e-04,2.388e-03,0.997;TLOD=-3.317e+00,-3.324e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4174,15,0:2.413e-04,2.370e-04:4189:1752,10,0:2422,5,0 +MT 360 . A C, . base_quality;t_lod CONTQ=93;DP=4300;ECNT=24;MBQ=28,8,0;MFRL=321,355,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.317e+00,-3.324e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4174,15,0:2.413e-04,2.370e-04:4189:1752,10,0:2422,5,0 MT 361 . A . . END=362 GT:DP:MIN_DP:TLOD 0/0:5199:5198:-3.641e+00 MT 363 . A . . END=364 GT:DP:MIN_DP:TLOD 0/0:5251:5243:-3.476e+00 MT 365 . A . . END=365 GT:DP:MIN_DP:TLOD 0/0:5264:5264:-3.643e+00 @@ -380,58 +378,58 @@ MT 449 . T . . END=449 GT:DP:MIN_DP:TLOD 0/0:6410:6410:-2.783e+00 MT 450 . T . . END=450 GT:DP:MIN_DP:TLOD 0/0:6430:6430:-3.620e+00 MT 451 . A . . END=451 GT:DP:MIN_DP:TLOD 0/0:6404:6404:-3.112e+00 MT 452 . T . . END=455 GT:DP:MIN_DP:TLOD 0/0:6397:6366:-3.741e+00 -MT 456 . C T, . base_quality;t_lod CONTQ=93;DP=3658;ECNT=23;MBQ=28,14,0;MFRL=322,524,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.814e-04;SAPP=9.050e-04,5.871e-05,0.999;TLOD=-3.254e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3553,1,0:2.787e-04,2.783e-04:3554:1388,1,0:2165,0,0 -MT 457 . C A, . t_lod CONTQ=93;DP=3674;ECNT=23;MBQ=28,20,0;MFRL=323,315,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.425e-04;SAPP=4.044e-04,1.454e-04,0.999;TLOD=-3.189e+00,-3.256e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3558,3,0:3.239e-04,2.776e-04:3561:1385,1,0:2173,2,0 +MT 456 . C T, . base_quality;t_lod CONTQ=93;DP=3658;ECNT=23;MBQ=28,14,0;MFRL=322,524,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.254e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3553,1,0:2.787e-04,2.783e-04:3554:1388,1,0:2165,0,0 +MT 457 . C A, . t_lod CONTQ=93;DP=3674;ECNT=23;MBQ=28,20,0;MFRL=323,315,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.189e+00,-3.256e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3558,3,0:3.239e-04,2.776e-04:3561:1385,1,0:2173,2,0 MT 458 . C . . END=458 GT:DP:MIN_DP:TLOD 0/0:3629:3629:-3.552e+00 MT 459 . C . . END=459 GT:DP:MIN_DP:TLOD 0/0:3669:3669:-3.354e+00 MT 460 . T . . END=462 GT:DP:MIN_DP:TLOD 0/0:3640:3625:-3.559e+00 MT 463 . C . . END=463 GT:DP:MIN_DP:TLOD 0/0:3680:3680:-3.469e+00 -MT 464 . A C,T, . base_quality;t_lod CONTQ=93;DP=3744;ECNT=23;MBQ=26,5,13,0;MFRL=324,342,269,0;MMQ=60,60,60,0;MPOS=33,62,0;POPAF=7.30,7.30,7.30;SAAF=0.030,0.030,0.033;SAPP=1.055e-03,1.711e-03,0.997;TLOD=-2.523e+00,-3.073e+00,-3.075e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3448,119,4,0:9.508e-04,2.821e-04,2.809e-04:3571:1314,61,1,0:2134,58,3,0 +MT 464 . A C,T, . base_quality;t_lod CONTQ=93;DP=3744;ECNT=23;MBQ=26,5,13,0;MFRL=324,342,269,0;MMQ=60,60,60,0;MPOS=33,62,0;POPAF=7.30,7.30,7.30;TLOD=-2.523e+00,-3.073e+00,-3.075e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3448,119,4,0:9.508e-04,2.821e-04,2.809e-04:3571:1314,61,1,0:2134,58,3,0 MT 465 . C . . END=465 GT:DP:MIN_DP:TLOD 0/0:3669:3669:-3.558e+00 MT 466 . T . . END=466 GT:DP:MIN_DP:TLOD 0/0:3628:3628:-3.401e+00 MT 467 . C . . END=469 GT:DP:MIN_DP:TLOD 0/0:3700:3682:-3.571e+00 -MT 470 . A C, . base_quality;t_lod CONTQ=93;DP=3789;ECNT=23;MBQ=28,5,0;MFRL=325,320,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.013;SAPP=1.000,4.858e-10,4.865e-06;TLOD=-3.088e+00,-3.264e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3608,49,0:4.115e-04,2.723e-04:3657:1387,32,0:2221,17,0 -MT 471 . T C, . base_quality;t_lod CONTQ=93;DP=3787;ECNT=23;MBQ=28,6,0;MFRL=324,464,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.879e-03;SAPP=0.051,6.894e-05,0.949;TLOD=-3.265e+00,-3.273e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3719,7,0:2.716e-04,2.669e-04:3726:1437,4,0:2282,3,0:0|1:471_T_C:471 -MT 472 . A C, . base_quality;t_lod CONTQ=93;DP=3803;ECNT=23;MBQ=28,8,0;MFRL=324,297,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.907e-03;SAPP=0.013,1.418e-04,0.986;TLOD=-3.215e+00,-3.267e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3650,18,0:3.058e-04,2.702e-04:3668:1395,11,0:2255,7,0 +MT 470 . A C, . base_quality;t_lod CONTQ=93;DP=3789;ECNT=23;MBQ=28,5,0;MFRL=325,320,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.088e+00,-3.264e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3608,49,0:4.115e-04,2.723e-04:3657:1387,32,0:2221,17,0 +MT 471 . T C, . base_quality;t_lod CONTQ=93;DP=3787;ECNT=23;MBQ=28,6,0;MFRL=324,464,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.265e+00,-3.273e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3719,7,0:2.716e-04,2.669e-04:3726:1437,4,0:2282,3,0:0|1:471_T_C:471 +MT 472 . A C, . base_quality;t_lod CONTQ=93;DP=3803;ECNT=23;MBQ=28,8,0;MFRL=324,297,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.215e+00,-3.267e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3650,18,0:3.058e-04,2.702e-04:3668:1395,11,0:2255,7,0 MT 473 . C . . END=474 GT:DP:MIN_DP:TLOD 0/0:3628:3625:-3.428e+00 -MT 475 . A C, . base_quality;t_lod CONTQ=93;DP=3824;ECNT=23;MBQ=28,6,0;MFRL=326,327,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.295e-03;SAPP=2.036e-03,2.809e-04,0.998;TLOD=-2.985e+00,-3.270e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3674,27,0:4.781e-04,2.687e-04:3701:1419,15,0:2255,12,0 +MT 475 . A C, . base_quality;t_lod CONTQ=93;DP=3824;ECNT=23;MBQ=28,6,0;MFRL=326,327,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-2.985e+00,-3.270e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3674,27,0:4.781e-04,2.687e-04:3701:1419,15,0:2255,12,0 MT 476 . C . . END=476 GT:DP:MIN_DP:TLOD 0/0:3633:3633:-3.400e+00 MT 477 . T . . END=477 GT:DP:MIN_DP:TLOD 0/0:3631:3631:-3.522e+00 -MT 478 . A C,T, . base_quality;t_lod CONTQ=93;DP=3868;ECNT=23;MBQ=28,8,12,0;MFRL=326,339,232,0;MMQ=60,60,60,0;MPOS=16,21,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.166e-03;SAPP=2.193e-03,2.427e-04,0.998;TLOD=-3.084e+00,-3.099e+00,-3.099e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3707,23,1,0:2.750e-04,2.654e-04,2.651e-04:3731:1425,9,1,0:2282,14,0,0 +MT 478 . A C,T, . base_quality;t_lod CONTQ=93;DP=3868;ECNT=23;MBQ=28,8,12,0;MFRL=326,339,232,0;MMQ=60,60,60,0;MPOS=16,21,0;POPAF=7.30,7.30,7.30;TLOD=-3.084e+00,-3.099e+00,-3.099e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3707,23,1,0:2.750e-04,2.654e-04,2.651e-04:3731:1425,9,1,0:2282,14,0,0 MT 479 . A . . END=479 GT:DP:MIN_DP:TLOD 0/0:3617:3617:-3.477e+00 -MT 480 . T C, . base_quality;t_lod CONTQ=93;DP=3877;ECNT=23;MBQ=27,4,0;MFRL=326,328,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.799e-03;SAPP=7.514e-03,1.513e-04,0.992;TLOD=-3.266e+00,-3.276e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3733,18,0:2.709e-04,2.649e-04:3751:1436,10,0:2297,8,0 +MT 480 . T C, . base_quality;t_lod CONTQ=93;DP=3877;ECNT=23;MBQ=27,4,0;MFRL=326,328,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.266e+00,-3.276e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3733,18,0:2.709e-04,2.649e-04:3751:1436,10,0:2297,8,0 MT 481 . C . . END=481 GT:DP:MIN_DP:TLOD 0/0:3668:3668:-3.574e+00 MT 482 . T . . END=483 GT:DP:MIN_DP:TLOD 0/0:3680:3673:-3.409e+00 MT 484 . A . . END=484 GT:DP:MIN_DP:TLOD 0/0:3681:3681:-3.543e+00 MT 485 . T . . END=487 GT:DP:MIN_DP:TLOD 0/0:3709:3666:-3.447e+00 -MT 488 . A C, . base_quality;t_lod CONTQ=93;DP=3915;ECNT=23;MBQ=28,7,0;MFRL=327,325,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.009e-03;SAPP=3.112e-04,8.840e-04,0.999;TLOD=-3.271e+00,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3774,19,0:2.679e-04,2.617e-04:3793:1441,10,0:2333,9,0 +MT 488 . A C, . base_quality;t_lod CONTQ=93;DP=3915;ECNT=23;MBQ=28,7,0;MFRL=327,325,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.271e+00,-3.281e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3774,19,0:2.679e-04,2.617e-04:3793:1441,10,0:2333,9,0 MT 489 . T . . END=491 GT:DP:MIN_DP:TLOD 0/0:3720:3718:-3.572e+00 -MT 492 . A C, . base_quality;t_lod CONTQ=93;DP=3907;ECNT=23;MBQ=28,2,0;MFRL=327,289,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.907e-03;SAPP=8.053e-05,0.424,0.576;TLOD=-3.263e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3764,30,0:2.730e-04,2.629e-04:3794:1421,17,0:2343,13,0 -MT 493 . A C, . base_quality;t_lod CONTQ=93;DP=3907;ECNT=23;MBQ=26,5,0;MFRL=327,325,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.040,0.010,0.039;SAPP=0.00,1.00,0.00;TLOD=-2.993e+00,-3.266e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3614,147,0:5.693e-04,2.715e-04:3761:1371,57,0:2243,90,0 -MT 494 . C A, . base_quality;t_lod CONTQ=93;DP=3922;ECNT=23;MBQ=28,0,0;MFRL=327,615,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.189e-04;SAPP=1.322e-03,6.360e-05,0.999;TLOD=-3.287e+00,-3.288e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3852,2,0:2.581e-04,2.575e-04:3854:1466,1,0:2386,1,0:0|1:471_T_C:471 +MT 492 . A C, . base_quality;t_lod CONTQ=93;DP=3907;ECNT=23;MBQ=28,2,0;MFRL=327,289,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.263e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3764,30,0:2.730e-04,2.629e-04:3794:1421,17,0:2343,13,0 +MT 493 . A C, . base_quality;t_lod CONTQ=93;DP=3907;ECNT=23;MBQ=26,5,0;MFRL=327,325,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-2.993e+00,-3.266e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3614,147,0:5.693e-04,2.715e-04:3761:1371,57,0:2243,90,0 +MT 494 . C A, . base_quality;t_lod CONTQ=93;DP=3922;ECNT=23;MBQ=28,0,0;MFRL=327,615,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.287e+00,-3.288e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3852,2,0:2.581e-04,2.575e-04:3854:1466,1,0:2386,1,0:0|1:471_T_C:471 MT 495 . C . . END=495 GT:DP:MIN_DP:TLOD 0/0:3787:3787:-3.465e+00 MT 496 . C . . END=498 GT:DP:MIN_DP:TLOD 0/0:3803:3791:-3.583e+00 -MT 499 . G C, . base_quality;t_lod CONTQ=93;DP=3954;ECNT=23;MBQ=27,5,0;MFRL=327,324,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.022;SAPP=1.00,0.00,0.00;TLOD=0.792,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3709,85,0:4.323e-03,2.633e-04:3794:1396,52,0:2313,33,0 +MT 499 . G C, . base_quality;t_lod CONTQ=93;DP=3954;ECNT=23;MBQ=27,5,0;MFRL=327,324,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=0.792,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3709,85,0:4.323e-03,2.633e-04:3794:1396,52,0:2313,33,0 MT 500 . C . . END=502 GT:DP:MIN_DP:TLOD 0/0:3846:3812:-3.583e+00 -MT 503 . A C, . base_quality;t_lod CONTQ=93;DP=3998;ECNT=23;MBQ=28,5,0;MFRL=327,329,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.016;SAPP=1.000,3.378e-12,3.576e-08;TLOD=-3.096e+00,-3.286e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3790,61,0:4.001e-04,2.588e-04:3851:1445,29,0:2345,32,0 +MT 503 . A C, . base_quality;t_lod CONTQ=93;DP=3998;ECNT=23;MBQ=28,5,0;MFRL=327,329,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.096e+00,-3.286e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3790,61,0:4.001e-04,2.588e-04:3851:1445,29,0:2345,32,0 MT 504 . T . . END=504 GT:DP:MIN_DP:TLOD 0/0:3815:3815:-3.506e+00 MT 505 . C . . END=505 GT:DP:MIN_DP:TLOD 0/0:3862:3862:-3.466e+00 MT 506 . C . . END=506 GT:DP:MIN_DP:TLOD 0/0:3897:3897:-3.587e+00 MT 507 . T . . END=508 GT:DP:MIN_DP:TLOD 0/0:3878:3866:-3.497e+00 MT 509 . C . . END=511 GT:DP:MIN_DP:TLOD 0/0:3962:3920:-3.602e+00 -MT 512 . A C, . base_quality;t_lod CONTQ=93;DP=4111;ECNT=23;MBQ=28,5,0;MFRL=327,320,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.515e-03;SAPP=1.487e-03,2.855e-04,0.998;TLOD=-3.163e+00,-3.303e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3962,30,0:3.471e-04,2.489e-04:3992:1523,14,0:2439,16,0 -MT 513 . G GCA, . t_lod CONTQ=93;DP=4127;ECNT=23;MBQ=28,28,0;MFRL=328,299,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.096e-03;SAPP=1.713e-04,7.559e-04,0.999;TLOD=1.92,-3.295e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3808,8,0:1.865e-03,2.534e-04:3816:1463,4,0:2345,4,0 +MT 512 . A C, . base_quality;t_lod CONTQ=93;DP=4111;ECNT=23;MBQ=28,5,0;MFRL=327,320,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.163e+00,-3.303e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3962,30,0:3.471e-04,2.489e-04:3992:1523,14,0:2439,16,0 +MT 513 . G GCA, . t_lod CONTQ=93;DP=4127;ECNT=23;MBQ=28,28,0;MFRL=328,299,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;TLOD=1.92,-3.295e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3808,8,0:1.865e-03,2.534e-04:3816:1463,4,0:2345,4,0 MT 514 . C . . END=514 GT:DP:MIN_DP:TLOD 0/0:4001:4001:-3.480e+00 MT 515 . A . . END=525 GT:DP:MIN_DP:TLOD 0/0:4111:4012:-3.629e+00 -MT 526 . G T, . base_quality;t_lod CONTQ=93;DP=4378;ECNT=23;MBQ=26,13,0;MFRL=327,283,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.173e-03;SAPP=4.399e-04,1.348e-04,0.999;TLOD=-3.258e+00,-3.332e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4256,5,0:2.742e-04,2.329e-04:4261:1630,4,0:2626,1,0 +MT 526 . G T, . base_quality;t_lod CONTQ=93;DP=4378;ECNT=23;MBQ=26,13,0;MFRL=327,283,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.258e+00,-3.332e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4256,5,0:2.742e-04,2.329e-04:4261:1630,4,0:2626,1,0 MT 527 . C . . END=549 GT:DP:MIN_DP:TLOD 0/0:4514:4286:-3.669e+00 -MT 550 . A C, . base_quality;t_lod CONTQ=93;DP=4816;ECNT=23;MBQ=28,9,0;MFRL=329,371,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.869e-03;SAPP=6.062e-04,4.168e-04,0.999;TLOD=-3.141e+00,-3.372e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4665,37,0:3.510e-04,2.121e-04:4702:1837,19,0:2828,18,0 -MT 551 . A C, . base_quality;t_lod CONTQ=93;DP=4837;ECNT=23;MBQ=28,8,0;MFRL=329,306,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.490e-03;SAPP=9.276e-05,0.104,0.896;TLOD=-3.129e+00,-3.376e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4710,26,0:3.518e-04,2.104e-04:4736:1860,11,0:2850,15,0 +MT 550 . A C, . base_quality;t_lod CONTQ=93;DP=4816;ECNT=23;MBQ=28,9,0;MFRL=329,371,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.141e+00,-3.372e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4665,37,0:3.510e-04,2.121e-04:4702:1837,19,0:2828,18,0 +MT 551 . A C, . base_quality;t_lod CONTQ=93;DP=4837;ECNT=23;MBQ=28,8,0;MFRL=329,306,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.129e+00,-3.376e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4710,26,0:3.518e-04,2.104e-04:4736:1860,11,0:2850,15,0 MT 552 . C . . END=555 GT:DP:MIN_DP:TLOD 0/0:4855:4806:-3.683e+00 -MT 556 . A T, . base_quality;t_lod CONTQ=93;DP=4933;ECNT=23;MBQ=28,13,0;MFRL=329,375,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.180e-04;SAPP=6.425e-05,5.040e-04,0.999;TLOD=-3.382e+00,-3.382e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4783,2,0:2.077e-04,2.073e-04:4785:1896,1,0:2887,1,0 +MT 556 . A T, . base_quality;t_lod CONTQ=93;DP=4933;ECNT=23;MBQ=28,13,0;MFRL=329,375,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;TLOD=-3.382e+00,-3.382e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4783,2,0:2.077e-04,2.073e-04:4785:1896,1,0:2887,1,0 MT 557 . C . . END=561 GT:DP:MIN_DP:TLOD 0/0:4981:4872:-3.687e+00 -MT 562 . A C, . base_quality;t_lod CONTQ=93;DP=5073;ECNT=23;MBQ=28,8,0;MFRL=329,346,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.022e-03;SAPP=1.303e-04,1.639e-03,0.998;TLOD=-3.295e+00,-3.397e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4949,15,0:2.524e-04,2.004e-04:4964:1974,5,0:2975,10,0 -MT 563 . A C, . base_quality;t_lod CONTQ=93;DP=5092;ECNT=23;MBQ=28,5,0;MFRL=329,303,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.213e-03;SAPP=1.003e-04,6.921e-03,0.993;TLOD=-3.381e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4964,16,0:2.082e-04,1.997e-04:4980:1974,7,0:2990,9,0 +MT 562 . A C, . base_quality;t_lod CONTQ=93;DP=5073;ECNT=23;MBQ=28,8,0;MFRL=329,346,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.295e+00,-3.397e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4949,15,0:2.524e-04,2.004e-04:4964:1974,5,0:2975,10,0 +MT 563 . A C, . base_quality;t_lod CONTQ=93;DP=5092;ECNT=23;MBQ=28,5,0;MFRL=329,303,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.381e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4964,16,0:2.082e-04,1.997e-04:4980:1974,7,0:2990,9,0 MT 564 . G . . END=564 GT:DP:MIN_DP:TLOD 0/0:6392:6392:-7.878e-02 MT 565 . A . . END=566 GT:DP:MIN_DP:TLOD 0/0:6460:6419:-3.742e+00 MT 567 . A . . END=567 GT:DP:MIN_DP:TLOD 0/0:6423:6423:8.94 @@ -509,27 +507,27 @@ MT 719 . G . . END=719 GT:DP:MIN_DP:TLOD 0/0:6982:6982:-3.385e+00 MT 720 . T . . END=720 GT:DP:MIN_DP:TLOD 0/0:7066:7066:-3.780e+00 MT 721 . T . . END=721 GT:DP:MIN_DP:TLOD 0/0:7054:7054:-3.329e+00 MT 722 . C . . END=725 GT:DP:MIN_DP:TLOD 0/0:7098:7079:-3.720e+00 -MT 726 . C A, . base_quality;t_lod CONTQ=93;DP=6611;ECNT=12;MBQ=29,13,0;MFRL=339,400,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.768e-04;SAPP=1.704e-04,1.146e-04,1.000;TLOD=-3.451e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6432,5,0:1.762e-04,1.539e-04:6437:2985,4,0:3447,1,0 +MT 726 . C A, . base_quality;t_lod CONTQ=93;DP=6611;ECNT=12;MBQ=29,13,0;MFRL=339,400,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.451e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6432,5,0:1.762e-04,1.539e-04:6437:2985,4,0:3447,1,0 MT 727 . T . . END=736 GT:DP:MIN_DP:TLOD 0/0:6659:6627:-3.813e+00 -MT 737 . C A, . base_quality;t_lod CONTQ=93;DP=6683;ECNT=12;MBQ=29,12,0;MFRL=338,336,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.536e-03;SAPP=2.753e-04,1.370e-04,1.000;TLOD=-3.395e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6502,10,0:1.990e-04,1.522e-04:6512:3021,5,0:3481,5,0 +MT 737 . C A, . base_quality;t_lod CONTQ=93;DP=6683;ECNT=12;MBQ=29,12,0;MFRL=338,336,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.395e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6502,10,0:1.990e-04,1.522e-04:6512:3021,5,0:3481,5,0 MT 738 . A . . END=741 GT:DP:MIN_DP:TLOD 0/0:6671:6638:-3.819e+00 -MT 742 . T C, . base_quality;t_lod CONTQ=93;DP=6716;ECNT=12;MBQ=28,6,0;MFRL=337,409,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.906e-03;SAPP=3.364e-03,1.223e-04,0.997;TLOD=-3.378e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6491,32,0:2.099e-04,1.523e-04:6523:3016,16,0:3475,16,0 +MT 742 . T C, . base_quality;t_lod CONTQ=93;DP=6716;ECNT=12;MBQ=28,6,0;MFRL=337,409,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.378e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6491,32,0:2.099e-04,1.523e-04:6523:3016,16,0:3475,16,0 MT 743 . C . . END=747 GT:DP:MIN_DP:TLOD 0/0:6724:6711:-3.828e+00 -MT 748 . G T, . base_quality;t_lod CONTQ=93;DP=6759;ECNT=12;MBQ=28,13,0;MFRL=338,491,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.131e-04;SAPP=4.212e-03,5.072e-05,0.996;TLOD=-3.461e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6565,6,0:1.724e-04,1.508e-04:6571:3049,2,0:3516,4,0 +MT 748 . G T, . base_quality;t_lod CONTQ=93;DP=6759;ECNT=12;MBQ=28,13,0;MFRL=338,491,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.461e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6565,6,0:1.724e-04,1.508e-04:6571:3049,2,0:3516,4,0 MT 749 . G . . END=749 GT:DP:MIN_DP:TLOD 0/0:6719:6719:-3.646e+00 -MT 750 . A G, . PASS CONTQ=93;DP=6767;ECNT=12;MBQ=12,28,0;MFRL=410,338,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.999;SAPP=0.026,0.028,0.947;TLOD=20681.99,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:9,6576,0:1.000,1.506e-04:6585:5,3049,0:4,3527,0:0|1:750_A_G:750 +MT 750 . A G, . PASS CONTQ=93;DP=6767;ECNT=12;MBQ=12,28,0;MFRL=410,338,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20681.99,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:9,6576,0:1.000,1.506e-04:6585:5,3049,0:4,3527,0:0|1:750_A_G:750 MT 751 . A . . END=760 GT:DP:MIN_DP:TLOD 0/0:6758:6737:-3.829e+00 -MT 761 . A C, . base_quality;t_lod CONTQ=93;DP=6782;ECNT=12;MBQ=29,5,0;MFRL=338,348,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.788e-03;SAPP=1.198e-04,2.186e-03,0.998;TLOD=-3.444e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,25,0:1.804e-04,1.503e-04:6600:3045,15,0:3530,10,0 +MT 761 . A C, . base_quality;t_lod CONTQ=93;DP=6782;ECNT=12;MBQ=29,5,0;MFRL=338,348,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.444e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,25,0:1.804e-04,1.503e-04:6600:3045,15,0:3530,10,0 MT 762 . G . . END=768 GT:DP:MIN_DP:TLOD 0/0:6725:6686:-3.826e+00 -MT 769 . G A, . t_lod CONTQ=93;DP=6776;ECNT=12;MBQ=28,29,0;MFRL=338,268,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.128e-03;SAPP=9.919e-04,1.068e-04,0.999;TLOD=0.262,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6566,14,0:1.418e-03,1.504e-04:6580:3049,8,0:3517,6,0 -MT 770 . C A, . base_quality;t_lod CONTQ=93;DP=6769;ECNT=12;MBQ=28,11,0;MFRL=338,281,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.555e-04;SAPP=4.496e-05,9.366e-04,0.999;TLOD=-3.521e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6583,3,0:1.507e-04,1.503e-04:6586:3051,2,0:3532,1,0 +MT 769 . G A, . t_lod CONTQ=93;DP=6776;ECNT=12;MBQ=28,29,0;MFRL=338,268,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=0.262,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6566,14,0:1.418e-03,1.504e-04:6580:3049,8,0:3517,6,0 +MT 770 . C A, . base_quality;t_lod CONTQ=93;DP=6769;ECNT=12;MBQ=28,11,0;MFRL=338,281,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;TLOD=-3.521e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6583,3,0:1.507e-04,1.503e-04:6586:3051,2,0:3532,1,0 MT 771 . A . . END=774 GT:DP:MIN_DP:TLOD 0/0:6730:6701:-3.765e+00 -MT 775 . C G, . t_lod CONTQ=93;DP=6754;ECNT=12;MBQ=29,21,0;MFRL=338,226,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.500e-04;SAPP=1.207e-04,5.018e-05,1.000;TLOD=-3.512e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 2|1|0:6667,1,0:1.539e-04,1.491e-04:6668:3104,0,0:3563,1,0:1|0:750_A_G:750 +MT 775 . C G, . t_lod CONTQ=93;DP=6754;ECNT=12;MBQ=29,21,0;MFRL=338,226,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.512e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 2|1|0:6667,1,0:1.539e-04,1.491e-04:6668:3104,0,0:3563,1,0:1|0:750_A_G:750 MT 776 . A . . END=778 GT:DP:MIN_DP:TLOD 0/0:6695:6687:-3.809e+00 -MT 779 . T A, . base_quality;t_lod CONTQ=93;DP=6733;ECNT=12;MBQ=28,14,0;MFRL=338,299,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.00,0.010,7.695e-04;SAPP=2.136e-03,5.115e-05,0.998;TLOD=-3.497e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6493,5,0:1.591e-04,1.521e-04:6498:3024,3,0:3469,2,0 +MT 779 . T A, . base_quality;t_lod CONTQ=93;DP=6733;ECNT=12;MBQ=28,14,0;MFRL=338,299,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6493,5,0:1.591e-04,1.521e-04:6498:3024,3,0:3469,2,0 MT 780 . C . . END=782 GT:DP:MIN_DP:TLOD 0/0:6711:6697:-3.774e+00 -MT 783 . A C, . base_quality;t_lod CONTQ=93;DP=6727;ECNT=12;MBQ=28,9,0;MFRL=337,342,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.208e-03;SAPP=2.438e-04,2.707e-04,0.999;TLOD=-3.464e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6526,21,0:1.724e-04,1.516e-04:6547:3016,8,0:3510,13,0 -MT 784 . A C, . base_quality;t_lod CONTQ=93;DP=6726;ECNT=12;MBQ=28,6,0;MFRL=337,354,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.284e-03;SAPP=1.042e-04,7.735e-03,0.992;TLOD=-3.433e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6508,28,0:1.834e-04,1.519e-04:6536:3010,12,0:3498,16,0 +MT 783 . A C, . base_quality;t_lod CONTQ=93;DP=6727;ECNT=12;MBQ=28,9,0;MFRL=337,342,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.464e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6526,21,0:1.724e-04,1.516e-04:6547:3016,8,0:3510,13,0 +MT 784 . A C, . base_quality;t_lod CONTQ=93;DP=6726;ECNT=12;MBQ=28,6,0;MFRL=337,354,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.433e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6508,28,0:1.834e-04,1.519e-04:6536:3010,12,0:3498,16,0 MT 785 . C . . END=785 GT:DP:MIN_DP:TLOD 0/0:7139:7139:-3.622e+00 MT 786 . G . . END=786 GT:DP:MIN_DP:TLOD 0/0:7043:7043:-2.758e+00 MT 787 . C . . END=787 GT:DP:MIN_DP:TLOD 0/0:7167:7167:-3.812e+00 @@ -745,36 +743,36 @@ MT 1389 . G . . END=1389 GT:DP:MIN_DP:TLOD 0/0:7148:7148:-3.325e+00 MT 1390 . A . . END=1398 GT:DP:MIN_DP:TLOD 0/0:7178:7152:-3.828e+00 MT 1399 . A . . END=1400 GT:DP:MIN_DP:TLOD 0/0:7188:7183:-3.462e+00 MT 1401 . G . . END=1402 GT:DP:MIN_DP:TLOD 0/0:7186:7178:-3.753e+00 -MT 1403 . A C, . base_quality;t_lod CONTQ=93;DP=6566;ECNT=16;MBQ=29,7,0;MFRL=343,395,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.425e-03;SAPP=1.193e-04,1.666e-03,0.998;TLOD=-3.494e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6401,22,0:1.606e-04,1.548e-04:6423:3237,13,0:3164,9,0 +MT 1403 . A C, . base_quality;t_lod CONTQ=93;DP=6566;ECNT=16;MBQ=29,7,0;MFRL=343,395,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6401,22,0:1.606e-04,1.548e-04:6423:3237,13,0:3164,9,0 MT 1404 . A . . END=1405 GT:DP:MIN_DP:TLOD 0/0:6534:6501:-3.802e+00 -MT 1406 . T A,G, . base_quality;t_lod CONTQ=93;DP=6544;ECNT=16;MBQ=29,13,5,0;MFRL=343,429,381,0;MMQ=60,60,60,0;MPOS=27,27,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,5.348e-03;SAPP=1.578e-04,1.534e-03,0.998;TLOD=-3.329e+00,-3.301e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6324,1,34,0:1.563e-04,1.671e-04,1.561e-04:6359:3201,1,20,0:3123,0,14,0 -MT 1407 . T A,G, . base_quality;t_lod CONTQ=93;DP=6551;ECNT=16;MBQ=29,11,7,0;MFRL=344,319,330,0;MMQ=60,60,60,0;MPOS=9,44,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.515e-03;SAPP=1.911e-04,4.270e-04,0.999;TLOD=-3.329e+00,-3.196e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6347,5,16,0:1.563e-04,2.098e-04,1.557e-04:6368:3217,2,8,0:3130,3,8,0 +MT 1406 . T A,G, . base_quality;t_lod CONTQ=93;DP=6544;ECNT=16;MBQ=29,13,5,0;MFRL=343,429,381,0;MMQ=60,60,60,0;MPOS=27,27,0;POPAF=7.30,7.30,7.30;TLOD=-3.329e+00,-3.301e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6324,1,34,0:1.563e-04,1.671e-04,1.561e-04:6359:3201,1,20,0:3123,0,14,0 +MT 1407 . T A,G, . base_quality;t_lod CONTQ=93;DP=6551;ECNT=16;MBQ=29,11,7,0;MFRL=344,319,330,0;MMQ=60,60,60,0;MPOS=9,44,0;POPAF=7.30,7.30,7.30;TLOD=-3.329e+00,-3.196e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6347,5,16,0:1.563e-04,2.098e-04,1.557e-04:6368:3217,2,8,0:3130,3,8,0 MT 1408 . A . . END=1409 GT:DP:MIN_DP:TLOD 0/0:6499:6496:-3.800e+00 -MT 1410 . G T, . base_quality;t_lod CONTQ=93;DP=6559;ECNT=16;MBQ=28,12,0;MFRL=345,392,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.412e-04;SAPP=4.696e-04,8.344e-05,0.999;TLOD=-3.431e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6369,6,0:1.841e-04,1.553e-04:6375:3209,3,0:3160,3,0 -MT 1411 . G T, . base_quality;t_lod CONTQ=93;DP=6562;ECNT=16;MBQ=28,12,0;MFRL=345,347,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.723e-03;SAPP=1.049e-04,6.015e-04,0.999;TLOD=-3.260e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6372,11,0:2.698e-04,1.552e-04:6383:3208,7,0:3164,4,0 +MT 1410 . G T, . base_quality;t_lod CONTQ=93;DP=6559;ECNT=16;MBQ=28,12,0;MFRL=345,392,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.431e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6369,6,0:1.841e-04,1.553e-04:6375:3209,3,0:3160,3,0 +MT 1411 . G T, . base_quality;t_lod CONTQ=93;DP=6562;ECNT=16;MBQ=28,12,0;MFRL=345,347,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.260e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6372,11,0:2.698e-04,1.552e-04:6383:3208,7,0:3164,4,0 MT 1412 . G . . END=1412 GT:DP:MIN_DP:TLOD 0/0:6517:6517:-3.810e+00 -MT 1413 . T C, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=16;MBQ=28,7,0;MFRL=344,347,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.140e-03;SAPP=0.020,7.226e-05,0.980;TLOD=-3.453e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6350,20,0:1.762e-04,1.556e-04:6370:3191,11,0:3159,9,0 +MT 1413 . T C, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=16;MBQ=28,7,0;MFRL=344,347,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.453e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6350,20,0:1.762e-04,1.556e-04:6370:3191,11,0:3159,9,0 MT 1414 . C . . END=1421 GT:DP:MIN_DP:TLOD 0/0:6556:6463:-3.816e+00 -MT 1422 . G A,T, . base_quality;t_lod CONTQ=93;DP=6604;ECNT=16;MBQ=28,12,10,0;MFRL=344,436,380,0;MMQ=60,60,60,0;MPOS=28,30,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.230e-04;SAPP=1.405e-04,1.053e-04,1.000;TLOD=-3.275e+00,-3.318e+00,-3.335e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6417,4,8,0:1.763e-04,1.605e-04,1.541e-04:6429:3191,2,5,0:3226,2,3,0 +MT 1422 . G A,T, . base_quality;t_lod CONTQ=93;DP=6604;ECNT=16;MBQ=28,12,10,0;MFRL=344,436,380,0;MMQ=60,60,60,0;MPOS=28,30,0;POPAF=7.30,7.30,7.30;TLOD=-3.275e+00,-3.318e+00,-3.335e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6417,4,8,0:1.763e-04,1.605e-04,1.541e-04:6429:3191,2,5,0:3226,2,3,0 MT 1423 . A . . END=1423 GT:DP:MIN_DP:TLOD 0/0:6593:6593:-3.482e+00 MT 1424 . T . . END=1426 GT:DP:MIN_DP:TLOD 0/0:6593:6581:-3.795e+00 -MT 1427 . A T, . base_quality;t_lod CONTQ=93;DP=6632;ECNT=16;MBQ=29,15,0;MFRL=344,424,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.101e-04;SAPP=1.203e-04,9.561e-05,1.000;TLOD=-3.504e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6447,2,0:1.568e-04,1.534e-04:6449:3200,2,0:3247,0,0 +MT 1427 . A T, . base_quality;t_lod CONTQ=93;DP=6632;ECNT=16;MBQ=29,15,0;MFRL=344,424,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.504e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6447,2,0:1.568e-04,1.534e-04:6449:3200,2,0:3247,0,0 MT 1428 . G . . END=1428 GT:DP:MIN_DP:TLOD 0/0:6598:6598:-3.787e+00 -MT 1429 . C A, . base_quality;t_lod CONTQ=93;DP=6650;ECNT=16;MBQ=29,7,0;MFRL=344,325,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.238e-03;SAPP=2.302e-04,1.616e-04,1.000;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6456,8,0:1.545e-04,1.532e-04:6464:3202,3,0:3254,5,0 +MT 1429 . C A, . base_quality;t_lod CONTQ=93;DP=6650;ECNT=16;MBQ=29,7,0;MFRL=344,325,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6456,8,0:1.545e-04,1.532e-04:6464:3202,3,0:3254,5,0 MT 1430 . A . . END=1437 GT:DP:MIN_DP:TLOD 0/0:6618:6592:-3.807e+00 -MT 1438 . A G, . PASS CONTQ=93;DP=6672;ECNT=16;MBQ=15,28,0;MFRL=283,343,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,1.000;SAPP=0.027,0.027,0.946;TLOD=20686.62,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2,6492,0:1.000,1.525e-04:6494:2,3181,0:0,3311,0 +MT 1438 . A G, . PASS CONTQ=93;DP=6672;ECNT=16;MBQ=15,28,0;MFRL=283,343,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20686.62,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2,6492,0:1.000,1.525e-04:6494:2,3181,0:0,3311,0 MT 1439 . A . . END=1451 GT:DP:MIN_DP:TLOD 0/0:6581:6528:-3.816e+00 -MT 1452 . T G, . base_quality;t_lod CONTQ=93;DP=6621;ECNT=16;MBQ=29,9,0;MFRL=343,341,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.490e-03;SAPP=0.805,1.238e-05,0.195;TLOD=-3.309e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6430,29,0:2.489e-04,1.540e-04:6459:3132,14,0:3298,15,0 +MT 1452 . T G, . base_quality;t_lod CONTQ=93;DP=6621;ECNT=16;MBQ=29,9,0;MFRL=343,341,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.309e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6430,29,0:2.489e-04,1.540e-04:6459:3132,14,0:3298,15,0 MT 1453 . A . . END=1456 GT:DP:MIN_DP:TLOD 0/0:6591:6571:-3.735e+00 -MT 1457 . G C, . base_quality;t_lod CONTQ=93;DP=6625;ECNT=16;MBQ=28,9,0;MFRL=342,442,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.111e-04;SAPP=7.133e-05,2.762e-04,1.000;TLOD=-3.516e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6542,4,0:1.525e-04,1.521e-04:6546:3175,3,0:3367,1,0 +MT 1457 . G C, . base_quality;t_lod CONTQ=93;DP=6625;ECNT=16;MBQ=28,9,0;MFRL=342,442,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6542,4,0:1.525e-04,1.521e-04:6546:3175,3,0:3367,1,0 MT 1458 . A . . END=1458 GT:DP:MIN_DP:TLOD 0/0:6590:6590:-3.395e+00 MT 1459 . A . . END=1462 GT:DP:MIN_DP:TLOD 0/0:6554:6529:-3.813e+00 -MT 1463 . G T, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=16;MBQ=28,13,0;MFRL=342,225,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.606e-04;SAPP=8.023e-05,1.789e-04,1.000;TLOD=-3.513e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6510,3,0:1.536e-04,1.529e-04:6513:3152,0,0:3358,3,0 +MT 1463 . G T, . base_quality;t_lod CONTQ=93;DP=6596;ECNT=16;MBQ=28,13,0;MFRL=342,225,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.513e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6510,3,0:1.536e-04,1.529e-04:6513:3152,0,0:3358,3,0 MT 1464 . G . . END=1466 GT:DP:MIN_DP:TLOD 0/0:6458:6451:-3.808e+00 -MT 1467 . C A, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=16;MBQ=28,14,0;MFRL=342,390,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.368e-04;SAPP=1.607e-04,1.641e-04,1.000;TLOD=-3.433e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6399,6,0:1.833e-04,1.547e-04:6405:3094,4,0:3305,2,0 -MT 1468 . T G, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=16;MBQ=29,3,0;MFRL=342,385,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.217e-03;SAPP=5.749e-03,1.108e-04,0.994;TLOD=-3.491e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6376,27,0:1.615e-04,1.551e-04:6403:3082,16,0:3294,11,0 +MT 1467 . C A, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=16;MBQ=28,14,0;MFRL=342,390,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.433e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6399,6,0:1.833e-04,1.547e-04:6405:3094,4,0:3305,2,0 +MT 1468 . T G, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=16;MBQ=29,3,0;MFRL=342,385,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.491e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6376,27,0:1.615e-04,1.551e-04:6403:3082,16,0:3294,11,0 MT 1469 . G . . END=1472 GT:DP:MIN_DP:TLOD 0/0:6529:6481:-3.810e+00 -MT 1473 . C A, . base_quality;t_lod CONTQ=93;DP=6574;ECNT=16;MBQ=25,13,0;MFRL=342,331,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.567e-03;SAPP=1.824e-04,1.953e-04,1.000;TLOD=-3.218e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6373,10,0:2.853e-04,1.553e-04:6383:3076,4,0:3297,6,0 +MT 1473 . C A, . base_quality;t_lod CONTQ=93;DP=6574;ECNT=16;MBQ=25,13,0;MFRL=342,331,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.218e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6373,10,0:2.853e-04,1.553e-04:6383:3076,4,0:3297,6,0 MT 1474 . G . . END=1475 GT:DP:MIN_DP:TLOD 0/0:6988:6984:-3.779e+00 MT 1476 . G . . END=1476 GT:DP:MIN_DP:TLOD 0/0:6908:6908:-3.314e+00 MT 1477 . T . . END=1484 GT:DP:MIN_DP:TLOD 0/0:7028:6995:-3.830e+00 @@ -1060,27 +1058,27 @@ MT 2316 . T . . END=2316 GT:DP:MIN_DP:TLOD 0/0:7199:7199:-3.483e+00 MT 2317 . G . . END=2320 GT:DP:MIN_DP:TLOD 0/0:7212:7191:-3.783e+00 MT 2321 . A . . END=2322 GT:DP:MIN_DP:TLOD 0/0:7131:7097:-3.354e+00 MT 2323 . A . . END=2324 GT:DP:MIN_DP:TLOD 0/0:7111:7070:-3.779e+00 -MT 2325 . T A,C, . base_quality;t_lod CONTQ=93;DP=6617;ECNT=9;MBQ=28,12,7,0;MFRL=338,383,363,0;MMQ=60,60,60,0;MPOS=25,22,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.147e-03;SAPP=9.089e-05,4.571e-03,0.995;TLOD=-3.294e+00,-3.295e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6336,20,50,0:1.697e-04,1.695e-04,1.558e-04:6406:2974,11,19,0:3362,9,31,0 +MT 2325 . T A,C, . base_quality;t_lod CONTQ=93;DP=6617;ECNT=9;MBQ=28,12,7,0;MFRL=338,383,363,0;MMQ=60,60,60,0;MPOS=25,22,0;POPAF=7.30,7.30,7.30;TLOD=-3.294e+00,-3.295e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6336,20,50,0:1.697e-04,1.695e-04,1.558e-04:6406:2974,11,19,0:3362,9,31,0 MT 2326 . C . . END=2326 GT:DP:MIN_DP:TLOD 0/0:6533:6533:-3.749e+00 -MT 2327 . T A, . base_quality;t_lod CONTQ=93;DP=6609;ECNT=9;MBQ=28,11,0;MFRL=338,324,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.037e-03;SAPP=1.447e-04,4.129e-04,0.999;TLOD=-3.482e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6370,13,0:1.649e-04,1.552e-04:6383:2973,6,0:3397,7,0 +MT 2327 . T A, . base_quality;t_lod CONTQ=93;DP=6609;ECNT=9;MBQ=28,11,0;MFRL=338,324,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.482e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6370,13,0:1.649e-04,1.552e-04:6383:2973,6,0:3397,7,0 MT 2328 . C . . END=2328 GT:DP:MIN_DP:TLOD 0/0:6524:6524:-3.356e+00 -MT 2329 . C A, . base_quality;t_lod CONTQ=93;DP=6608;ECNT=9;MBQ=28,12,0;MFRL=338,459,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.772e-04;SAPP=2.071e-04,9.933e-05,1.000;TLOD=-3.510e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6428,5,0:1.546e-04,1.541e-04:6433:3006,2,0:3422,3,0 +MT 2329 . C A, . base_quality;t_lod CONTQ=93;DP=6608;ECNT=9;MBQ=28,12,0;MFRL=338,459,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6428,5,0:1.546e-04,1.541e-04:6433:3006,2,0:3422,3,0 MT 2330 . T . . END=2346 GT:DP:MIN_DP:TLOD 0/0:6582:6447:-3.815e+00 MT 2347 . C . . END=2347 GT:DP:MIN_DP:TLOD 0/0:6623:6623:-2.906e+00 MT 2348 . A . . END=2351 GT:DP:MIN_DP:TLOD 0/0:6645:6635:-3.820e+00 -MT 2352 . T C,A, . PASS CONTQ=93;DP=6694;ECNT=9;MBQ=28,28,11,0;MFRL=256,338,370,0;MMQ=60,60,60,0;MPOS=37,27,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.028,0.019,0.953;TLOD=20632.13,-3.338e+00,-3.342e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:26,6505,11,0:0.996,1.530e-04,1.518e-04:6542:12,3006,5,0:14,3499,6,0 +MT 2352 . T C,A, . PASS CONTQ=93;DP=6694;ECNT=9;MBQ=28,28,11,0;MFRL=256,338,370,0;MMQ=60,60,60,0;MPOS=37,27,0;POPAF=7.30,7.30,7.30;TLOD=20632.13,-3.338e+00,-3.342e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:26,6505,11,0:0.996,1.530e-04,1.518e-04:6542:12,3006,5,0:14,3499,6,0 MT 2353 . A . . END=2354 GT:DP:MIN_DP:TLOD 0/0:6680:6678:-3.807e+00 MT 2355 . A . . END=2355 GT:DP:MIN_DP:TLOD 0/0:6668:6668:-3.344e+00 MT 2356 . A . . END=2360 GT:DP:MIN_DP:TLOD 0/0:6616:6600:-3.813e+00 -MT 2361 . G A, . base_quality;t_lod CONTQ=93;DP=6649;ECNT=9;MBQ=28,10,0;MFRL=338,391,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.629e-03;SAPP=4.014e-03,8.863e-05,0.996;TLOD=-3.461e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6450,17,0:1.729e-04,1.535e-04:6467:2979,11,0:3471,6,0 +MT 2361 . G A, . base_quality;t_lod CONTQ=93;DP=6649;ECNT=9;MBQ=28,10,0;MFRL=338,391,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.461e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6450,17,0:1.729e-04,1.535e-04:6467:2979,11,0:3471,6,0 MT 2362 . A . . END=2364 GT:DP:MIN_DP:TLOD 0/0:6604:6568:-3.812e+00 -MT 2365 . T A, . base_quality;t_lod CONTQ=93;DP=6620;ECNT=9;MBQ=29,12,0;MFRL=338,405,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.557e-03;SAPP=6.671e-03,6.111e-05,0.993;TLOD=-3.508e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6414,10,0:1.553e-04,1.542e-04:6424:2972,4,0:3442,6,0 +MT 2365 . T A, . base_quality;t_lod CONTQ=93;DP=6620;ECNT=9;MBQ=29,12,0;MFRL=338,405,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6414,10,0:1.553e-04,1.542e-04:6424:2972,4,0:3442,6,0 MT 2366 . G . . END=2376 GT:DP:MIN_DP:TLOD 0/0:6545:6511:-3.804e+00 -MT 2377 . G T, . base_quality;t_lod CONTQ=93;DP=6551;ECNT=9;MBQ=28,13,0;MFRL=338,340,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.257e-03;SAPP=2.889e-04,1.382e-04,1.000;TLOD=-3.504e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6355,8,0:1.567e-04,1.558e-04:6363:2961,2,0:3394,6,0 +MT 2377 . G T, . base_quality;t_lod CONTQ=93;DP=6551;ECNT=9;MBQ=28,13,0;MFRL=338,340,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.504e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6355,8,0:1.567e-04,1.558e-04:6363:2961,2,0:3394,6,0 MT 2378 . C . . END=2378 GT:DP:MIN_DP:TLOD 0/0:6505:6505:-3.771e+00 -MT 2379 . C G, . base_quality;t_lod CONTQ=93;DP=6538;ECNT=9;MBQ=28,13,0;MFRL=338,371,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.289e-04;SAPP=2.430e-04,8.011e-05,1.000;TLOD=-3.476e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6356,4,0:1.670e-04,1.557e-04:6360:2961,1,0:3395,3,0 +MT 2379 . C G, . base_quality;t_lod CONTQ=93;DP=6538;ECNT=9;MBQ=28,13,0;MFRL=338,371,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.476e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6356,4,0:1.670e-04,1.557e-04:6360:2961,1,0:3395,3,0 MT 2380 . C . . END=2384 GT:DP:MIN_DP:TLOD 0/0:6488:6458:-3.794e+00 -MT 2385 . T A, . base_quality;t_lod CONTQ=93;DP=6538;ECNT=9;MBQ=28,12,0;MFRL=338,341,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.105e-03;SAPP=4.053e-04,1.064e-04,0.999;TLOD=-3.378e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6325,7,0:2.084e-04,1.564e-04:6332:2936,5,0:3389,2,0 +MT 2385 . T A, . base_quality;t_lod CONTQ=93;DP=6538;ECNT=9;MBQ=28,12,0;MFRL=338,341,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.378e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6325,7,0:2.084e-04,1.564e-04:6332:2936,5,0:3389,2,0 MT 2386 . C . . END=2391 GT:DP:MIN_DP:TLOD 0/0:7081:7058:-3.823e+00 MT 2392 . T . . END=2392 GT:DP:MIN_DP:TLOD 0/0:7058:7058:-3.275e+00 MT 2393 . C . . END=2393 GT:DP:MIN_DP:TLOD 0/0:7095:7095:-3.683e+00 @@ -1151,41 +1149,41 @@ MT 2652 . G . . END=2655 GT:DP:MIN_DP:TLOD 0/0:7177:7143:-3.776e+00 MT 2656 . T . . END=2656 GT:DP:MIN_DP:TLOD 0/0:7172:7172:-3.099e+00 MT 2657 . C . . END=2673 GT:DP:MIN_DP:TLOD 0/0:7213:7158:-3.844e+00 MT 2674 . T . . END=2674 GT:DP:MIN_DP:TLOD 0/0:7185:7185:-3.318e+00 -MT 2675 . G T, . base_quality;t_lod CONTQ=93;DP=6665;ECNT=17;MBQ=28,12,0;MFRL=339,232,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.167e-04;SAPP=1.455e-04,1.002e-04,1.000;TLOD=-3.488e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6482,4,0:1.626e-04,1.528e-04:6486:3232,2,0:3250,2,0 +MT 2675 . G T, . base_quality;t_lod CONTQ=93;DP=6665;ECNT=17;MBQ=28,12,0;MFRL=339,232,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.488e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6482,4,0:1.626e-04,1.528e-04:6486:3232,2,0:3250,2,0 MT 2676 . A . . END=2676 GT:DP:MIN_DP:TLOD 0/0:6634:6634:-3.753e+00 -MT 2677 . A C, . base_quality;t_lod CONTQ=93;DP=6663;ECNT=17;MBQ=29,5,0;MFRL=339,398,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.389e-03;SAPP=2.463e-03,6.496e-05,0.997;TLOD=-3.489e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,9,0:1.621e-04,1.528e-04:6478:3218,4,0:3251,5,0 +MT 2677 . A C, . base_quality;t_lod CONTQ=93;DP=6663;ECNT=17;MBQ=29,5,0;MFRL=339,398,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.489e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,9,0:1.621e-04,1.528e-04:6478:3218,4,0:3251,5,0 MT 2678 . A . . END=2681 GT:DP:MIN_DP:TLOD 0/0:6628:6620:-3.816e+00 -MT 2682 . A T, . base_quality;t_lod CONTQ=93;DP=6668;ECNT=17;MBQ=28,12,0;MFRL=339,387,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.081e-03;SAPP=1.681e-04,1.977e-04,1.000;TLOD=-3.506e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6470,7,0:1.561e-04,1.529e-04:6477:3219,3,0:3251,4,0 +MT 2682 . A T, . base_quality;t_lod CONTQ=93;DP=6668;ECNT=17;MBQ=28,12,0;MFRL=339,387,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.506e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6470,7,0:1.561e-04,1.529e-04:6477:3219,3,0:3251,4,0 MT 2683 . C . . END=2683 GT:DP:MIN_DP:TLOD 0/0:6593:6593:-3.787e+00 -MT 2684 . C A, . base_quality;t_lod CONTQ=93;DP=6668;ECNT=17;MBQ=28,11,0;MFRL=340,283,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.157e-04;SAPP=1.410e-04,1.024e-04,1.000;TLOD=-3.441e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6493,4,0:1.800e-04,1.525e-04:6497:3228,3,0:3265,1,0 +MT 2684 . C A, . base_quality;t_lod CONTQ=93;DP=6668;ECNT=17;MBQ=28,11,0;MFRL=340,283,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.441e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6493,4,0:1.800e-04,1.525e-04:6497:3228,3,0:3265,1,0 MT 2685 . T . . END=2688 GT:DP:MIN_DP:TLOD 0/0:6611:6591:-3.814e+00 MT 2689 . C . . END=2689 GT:DP:MIN_DP:TLOD 0/0:6611:6611:-2.962e+00 MT 2690 . G . . END=2696 GT:DP:MIN_DP:TLOD 0/0:6670:6621:-3.823e+00 -MT 2697 . G T, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=17;MBQ=28,13,0;MFRL=340,361,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.371e-03;SAPP=6.920e-04,8.836e-05,0.999;TLOD=-3.514e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6554,9,0:1.532e-04,1.509e-04:6563:3261,4,0:3293,5,0 +MT 2697 . G T, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=17;MBQ=28,13,0;MFRL=340,361,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.514e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6554,9,0:1.532e-04,1.509e-04:6563:3261,4,0:3293,5,0 MT 2698 . G . . END=2699 GT:DP:MIN_DP:TLOD 0/0:6616:6602:-3.772e+00 MT 2700 . G . . END=2700 GT:DP:MIN_DP:TLOD 0/0:6646:6646:-3.287e+00 MT 2701 . G . . END=2705 GT:DP:MIN_DP:TLOD 0/0:6666:6649:-3.771e+00 -MT 2706 . A G, . PASS CONTQ=93;DP=6758;ECNT=17;MBQ=29,28,0;MFRL=309,340,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.027,0.020,0.954;TLOD=20727.39,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:26,6559,0:0.996,1.505e-04:6585:14,3258,0:12,3301,0 +MT 2706 . A G, . PASS CONTQ=93;DP=6758;ECNT=17;MBQ=29,28,0;MFRL=309,340,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=20727.39,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:26,6559,0:0.996,1.505e-04:6585:14,3258,0:12,3301,0 MT 2707 . A . . END=2709 GT:DP:MIN_DP:TLOD 0/0:6686:6666:-3.823e+00 -MT 2710 . C CCGCA, . t_lod CONTQ=93;DP=6752;ECNT=17;MBQ=28,23,0;MFRL=339,375,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.528e-04;SAPP=5.200e-05,1.207e-04,1.000;TLOD=-3.521e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6543,1,0:1.508e-04,1.507e-04:6544:3266,1,0:3277,0,0 +MT 2710 . C CCGCA, . t_lod CONTQ=93;DP=6752;ECNT=17;MBQ=28,23,0;MFRL=339,375,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.521e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6543,1,0:1.508e-04,1.507e-04:6544:3266,1,0:3277,0,0 MT 2711 . A . . END=2713 GT:DP:MIN_DP:TLOD 0/0:6705:6691:-3.822e+00 -MT 2714 . A C, . base_quality;t_lod CONTQ=93;DP=6757;ECNT=17;MBQ=29,8,0;MFRL=339,357,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.738e-03;SAPP=1.056e-04,1.742e-03,0.998;TLOD=-3.515e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6555,18,0:1.527e-04,1.508e-04:6573:3268,8,0:3287,10,0 -MT 2715 . A C, . base_quality;t_lod CONTQ=93;DP=6762;ECNT=17;MBQ=29,6,0;MFRL=339,316,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.669e-03;SAPP=1.819e-04,1.926e-04,1.000;TLOD=-3.342e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6578,11,0:2.241e-04,1.504e-04:6589:3281,4,0:3297,7,0 +MT 2714 . A C, . base_quality;t_lod CONTQ=93;DP=6757;ECNT=17;MBQ=29,8,0;MFRL=339,357,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.515e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6555,18,0:1.527e-04,1.508e-04:6573:3268,8,0:3287,10,0 +MT 2715 . A C, . base_quality;t_lod CONTQ=93;DP=6762;ECNT=17;MBQ=29,6,0;MFRL=339,316,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.342e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6578,11,0:2.241e-04,1.504e-04:6589:3281,4,0:3297,7,0 MT 2716 . G . . END=2716 GT:DP:MIN_DP:TLOD 0/0:6705:6705:-3.777e+00 -MT 2717 . A C, . base_quality;t_lod CONTQ=93;DP=6758;ECNT=17;MBQ=28,7,0;MFRL=339,405,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.894e-03;SAPP=1.500e-04,5.938e-04,0.999;TLOD=-3.418e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6546,19,0:1.923e-04,1.510e-04:6565:3259,8,0:3287,11,0 -MT 2718 . C A,T, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=17;MBQ=24,14,13,0;MFRL=339,333,314,0;MMQ=60,60,60,0;MPOS=22,26,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.065e-03;SAPP=1.591e-04,2.040e-04,1.000;TLOD=-3.267e+00,-3.269e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6563,7,4,0:1.808e-04,1.780e-04,1.510e-04:6574:3262,3,2,0:3301,4,2,0 +MT 2717 . A C, . base_quality;t_lod CONTQ=93;DP=6758;ECNT=17;MBQ=28,7,0;MFRL=339,405,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.418e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6546,19,0:1.923e-04,1.510e-04:6565:3259,8,0:3287,11,0 +MT 2718 . C A,T, . base_quality;t_lod CONTQ=93;DP=6753;ECNT=17;MBQ=24,14,13,0;MFRL=339,333,314,0;MMQ=60,60,60,0;MPOS=22,26,0;POPAF=7.30,7.30,7.30;TLOD=-3.267e+00,-3.269e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6563,7,4,0:1.808e-04,1.780e-04,1.510e-04:6574:3262,3,2,0:3301,4,2,0 MT 2719 . G . . END=2719 GT:DP:MIN_DP:TLOD 0/0:6661:6661:-3.645e+00 -MT 2720 . A C, . base_quality;t_lod CONTQ=93;DP=6741;ECNT=17;MBQ=28,7,0;MFRL=339,421,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.004e-04;SAPP=1.158e-04,9.453e-05,1.000;TLOD=-3.524e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6656,2,0:1.496e-04,1.494e-04:6658:3311,2,0:3345,0,0 +MT 2720 . A C, . base_quality;t_lod CONTQ=93;DP=6741;ECNT=17;MBQ=28,7,0;MFRL=339,421,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.524e+00,-3.525e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6656,2,0:1.496e-04,1.494e-04:6658:3311,2,0:3345,0,0 MT 2721 . G . . END=2726 GT:DP:MIN_DP:TLOD 0/0:6663:6619:-3.818e+00 -MT 2727 . C A, . t_lod CONTQ=93;DP=6695;ECNT=17;MBQ=28,22,0;MFRL=339,407,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.028e-04;SAPP=5.044e-05,3.235e-04,1.000;TLOD=-3.489e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6602,2,0:1.624e-04,1.505e-04:6604:3272,0,0:3330,2,0 -MT 2728 . C A, . base_quality;t_lod CONTQ=93;DP=6694;ECNT=17;MBQ=28,12,0;MFRL=340,353,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.074e-03;SAPP=1.549e-04,2.135e-04,1.000;TLOD=-3.441e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6508,7,0:1.798e-04,1.520e-04:6515:3236,3,0:3272,4,0 +MT 2727 . C A, . t_lod CONTQ=93;DP=6695;ECNT=17;MBQ=28,22,0;MFRL=339,407,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.489e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6602,2,0:1.624e-04,1.505e-04:6604:3272,0,0:3330,2,0 +MT 2728 . C A, . base_quality;t_lod CONTQ=93;DP=6694;ECNT=17;MBQ=28,12,0;MFRL=340,353,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.441e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6508,7,0:1.798e-04,1.520e-04:6515:3236,3,0:3272,4,0 MT 2729 . T . . END=2729 GT:DP:MIN_DP:TLOD 0/0:6603:6603:-3.805e+00 -MT 2730 . A C, . base_quality;t_lod CONTQ=93;DP=6676;ECNT=17;MBQ=29,8,0;MFRL=340,346,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.917e-03;SAPP=0.100,5.579e-05,0.900;TLOD=-3.405e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6495,19,0:1.943e-04,1.525e-04:6514:3237,4,0:3258,15,0 +MT 2730 . A C, . base_quality;t_lod CONTQ=93;DP=6676;ECNT=17;MBQ=29,8,0;MFRL=340,346,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.405e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6495,19,0:1.943e-04,1.525e-04:6514:3237,4,0:3258,15,0 MT 2731 . T . . END=2733 GT:DP:MIN_DP:TLOD 0/0:6612:6598:-3.780e+00 MT 2734 . A . . END=2734 GT:DP:MIN_DP:TLOD 0/0:6585:6585:-3.456e+00 MT 2735 . G . . END=2735 GT:DP:MIN_DP:TLOD 0/0:6599:6599:-3.815e+00 -MT 2736 . C A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=17;MBQ=28,12,0;MFRL=340,395,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.712e-04;SAPP=1.103e-04,1.746e-04,1.000;TLOD=-3.419e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6478,5,0:1.877e-04,1.528e-04:6483:3228,1,0:3250,4,0 -MT 2737 . T A, . base_quality;t_lod CONTQ=93;DP=6653;ECNT=17;MBQ=29,11,0;MFRL=340,271,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.741e-04;SAPP=1.110e-04,1.753e-04,1.000;TLOD=-3.509e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6454,5,0:1.547e-04,1.532e-04:6459:3219,5,0:3235,0,0 +MT 2736 . C A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=17;MBQ=28,12,0;MFRL=340,395,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.419e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6478,5,0:1.877e-04,1.528e-04:6483:3228,1,0:3250,4,0 +MT 2737 . T A, . base_quality;t_lod CONTQ=93;DP=6653;ECNT=17;MBQ=29,11,0;MFRL=340,271,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.509e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6454,5,0:1.547e-04,1.532e-04:6459:3219,5,0:3235,0,0 MT 2738 . T . . END=2742 GT:DP:MIN_DP:TLOD 0/0:7189:7170:-3.837e+00 MT 2743 . T . . END=2743 GT:DP:MIN_DP:TLOD 0/0:7203:7203:-3.373e+00 MT 2744 . T . . END=2767 GT:DP:MIN_DP:TLOD 0/0:7195:7077:-3.849e+00 @@ -1264,40 +1262,40 @@ MT 3052 . A . . END=3052 GT:DP:MIN_DP:TLOD 0/0:7195:7195:-3.417e+00 MT 3053 . A . . END=3057 GT:DP:MIN_DP:TLOD 0/0:7190:7127:-3.748e+00 MT 3058 . T . . END=3058 GT:DP:MIN_DP:TLOD 0/0:7218:7218:-3.327e+00 MT 3059 . A . . END=3059 GT:DP:MIN_DP:TLOD 0/0:7209:7209:-3.703e+00 -MT 3060 . C A, . base_quality;t_lod CONTQ=93;DP=6520;ECNT=16;MBQ=25,14,0;MFRL=338,337,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.869e-04;SAPP=7.493e-05,4.296e-04,0.999;TLOD=-3.481e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6349,5,0:1.653e-04,1.561e-04:6354:3141,2,0:3208,3,0 +MT 3060 . C A, . base_quality;t_lod CONTQ=93;DP=6520;ECNT=16;MBQ=25,14,0;MFRL=338,337,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.481e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6349,5,0:1.653e-04,1.561e-04:6354:3141,2,0:3208,3,0 MT 3061 . G . . END=3077 GT:DP:MIN_DP:TLOD 0/0:6510:6457:-3.810e+00 MT 3078 . C . . END=3079 GT:DP:MIN_DP:TLOD 0/0:6511:6500:-3.239e+00 -MT 3080 . G T, . base_quality;t_lod CONTQ=93;DP=6580;ECNT=16;MBQ=28,13,0;MFRL=338,362,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.250e-03;SAPP=4.212e-04,1.097e-04,0.999;TLOD=-3.313e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6393,8,0:2.402e-04,1.548e-04:6401:3150,4,0:3243,4,0 +MT 3080 . G T, . base_quality;t_lod CONTQ=93;DP=6580;ECNT=16;MBQ=28,13,0;MFRL=338,362,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.313e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6393,8,0:2.402e-04,1.548e-04:6401:3150,4,0:3243,4,0 MT 3081 . A . . END=3083 GT:DP:MIN_DP:TLOD 0/0:6516:6492:-3.810e+00 MT 3084 . A . . END=3084 GT:DP:MIN_DP:TLOD 0/0:6528:6528:-3.370e+00 MT 3085 . A . . END=3087 GT:DP:MIN_DP:TLOD 0/0:6525:6516:-3.807e+00 -MT 3088 . C A, . t_lod CONTQ=93;DP=6581;ECNT=16;MBQ=28,24,0;MFRL=338,383,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.824e-04;SAPP=5.904e-04,6.581e-05,0.999;TLOD=-3.383e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,5,0:2.065e-04,1.549e-04:6391:3138,2,0:3248,3,0 +MT 3088 . C A, . t_lod CONTQ=93;DP=6581;ECNT=16;MBQ=28,24,0;MFRL=338,383,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.383e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,5,0:2.065e-04,1.549e-04:6391:3138,2,0:3248,3,0 MT 3089 . A . . END=3092 GT:DP:MIN_DP:TLOD 0/0:6488:6470:-3.807e+00 -MT 3093 . C A, . base_quality;t_lod CONTQ=93;DP=6577;ECNT=16;MBQ=24,13,0;MFRL=339,362,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.692e-04;SAPP=8.313e-05,1.757e-04,1.000;TLOD=-3.432e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,3,0:1.835e-04,1.552e-04:6394:3124,2,0:3267,1,0 +MT 3093 . C A, . base_quality;t_lod CONTQ=93;DP=6577;ECNT=16;MBQ=24,13,0;MFRL=339,362,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.432e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6391,3,0:1.835e-04,1.552e-04:6394:3124,2,0:3267,1,0 MT 3094 . G . . END=3095 GT:DP:MIN_DP:TLOD 0/0:6466:6457:-3.792e+00 -MT 3096 . T C, . base_quality;t_lod CONTQ=93;DP=6567;ECNT=16;MBQ=28,7,0;MFRL=339,353,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.367e-03;SAPP=1.227e-03,1.126e-04,0.999;TLOD=-3.160e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6321,15,0:3.137e-04,1.561e-04:6336:3082,3,0:3239,12,0 +MT 3096 . T C, . base_quality;t_lod CONTQ=93;DP=6567;ECNT=16;MBQ=28,7,0;MFRL=339,353,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.160e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6321,15,0:3.137e-04,1.561e-04:6336:3082,3,0:3239,12,0 MT 3097 . T . . END=3103 GT:DP:MIN_DP:TLOD 0/0:6508:6499:-3.788e+00 -MT 3104 . TA T, . t_lod CONTQ=93;DP=6550;ECNT=16;MBQ=29,28,0;MFRL=339,467,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.823e-03;SAPP=2.961e-04,2.424e-04,0.999;TLOD=-3.336e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6359,18,0:2.321e-04,1.555e-04:6377:3079,8,0:3280,10,0 -MT 3105 . AC A, . t_lod CONTQ=93;DP=6533;ECNT=16;MBQ=29,28,0;MFRL=339,308,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.706e-04;SAPP=8.371e-05,1.749e-04,1.000;TLOD=-3.255e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6372,3,0:1.838e-04,1.547e-04:6375:3088,1,0:3284,2,0 +MT 3104 . TA T, . t_lod CONTQ=93;DP=6550;ECNT=16;MBQ=29,28,0;MFRL=339,467,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.336e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6359,18,0:2.321e-04,1.555e-04:6377:3079,8,0:3280,10,0 +MT 3105 . AC A, . t_lod CONTQ=93;DP=6533;ECNT=16;MBQ=29,28,0;MFRL=339,308,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.255e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6372,3,0:1.838e-04,1.547e-04:6375:3088,1,0:3284,2,0 MT 3107 . N . . END=3107 GT:DP:MIN_DP:TLOD 0/0:6523:6523:13616.42 MT 3108 . T . . END=3114 GT:DP:MIN_DP:TLOD 0/0:6468:6456:-3.801e+00 MT 3115 . T . . END=3115 GT:DP:MIN_DP:TLOD 0/0:6421:6421:-3.468e+00 MT 3116 . C . . END=3119 GT:DP:MIN_DP:TLOD 0/0:6477:6455:-3.796e+00 -MT 3120 . C A, . base_quality;t_lod CONTQ=93;DP=6539;ECNT=16;MBQ=28,2,0;MFRL=338,324,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.551e-04;SAPP=5.024e-05,1.322e-04,1.000;TLOD=-3.511e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6447,1,0:1.543e-04,1.542e-04:6448:3120,1,0:3327,0,0 +MT 3120 . C A, . base_quality;t_lod CONTQ=93;DP=6539;ECNT=16;MBQ=28,2,0;MFRL=338,324,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6447,1,0:1.543e-04,1.542e-04:6448:3120,1,0:3327,0,0 MT 3121 . C . . END=3125 GT:DP:MIN_DP:TLOD 0/0:6456:6423:-3.807e+00 -MT 3126 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6523;ECNT=16;MBQ=24,0,0;MFRL=338,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=5.042e-05,4.769e-05,1.000;TLOD=-3.510e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6429,0,0:1.547e-04,1.547e-04:6429:3125,0,0:3304,0,0 +MT 3126 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6523;ECNT=16;MBQ=24,0,0;MFRL=338,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6429,0,0:1.547e-04,1.547e-04:6429:3125,0,0:3304,0,0 MT 3127 . G . . END=3129 GT:DP:MIN_DP:TLOD 0/0:6481:6457:-3.788e+00 -MT 3130 . A T, . base_quality;t_lod CONTQ=93;DP=6523;ECNT=16;MBQ=29,12,0;MFRL=338,403,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.889e-04;SAPP=5.707e-04,6.746e-05,0.999;TLOD=-3.408e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6333,5,0:1.925e-04,1.561e-04:6338:3067,2,0:3266,3,0 -MT 3131 . G T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6521;ECNT=16;MBQ=28,0,0;MFRL=338,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=5.007e-05,4.785e-05,1.000;TLOD=-3.510e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6440,0,0:1.545e-04,1.545e-04:6440:3121,0,0:3319,0,0 +MT 3130 . A T, . base_quality;t_lod CONTQ=93;DP=6523;ECNT=16;MBQ=29,12,0;MFRL=338,403,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.408e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6333,5,0:1.925e-04,1.561e-04:6338:3067,2,0:3266,3,0 +MT 3131 . G T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6521;ECNT=16;MBQ=28,0,0;MFRL=338,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6440,0,0:1.545e-04,1.545e-04:6440:3121,0,0:3319,0,0 MT 3132 . G . . END=3134 GT:DP:MIN_DP:TLOD 0/0:6475:6450:-3.807e+00 -MT 3135 . A C, . base_quality;t_lod CONTQ=93;DP=6501;ECNT=16;MBQ=29,9,0;MFRL=338,327,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.486e-04;SAPP=1.097e-03,6.576e-05,0.999;TLOD=-3.480e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6319,6,0:1.657e-04,1.564e-04:6325:3064,3,0:3255,3,0 +MT 3135 . A C, . base_quality;t_lod CONTQ=93;DP=6501;ECNT=16;MBQ=29,9,0;MFRL=338,327,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6319,6,0:1.657e-04,1.564e-04:6325:3064,3,0:3255,3,0 MT 3136 . A . . END=3137 GT:DP:MIN_DP:TLOD 0/0:6479:6472:-3.793e+00 -MT 3138 . A C, . base_quality;t_lod CONTQ=93;DP=6493;ECNT=16;MBQ=28,6,0;MFRL=338,397,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.424e-03;SAPP=2.696e-04,1.434e-04,1.000;TLOD=-3.478e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6313,9,0:1.664e-04,1.567e-04:6322:3049,3,0:3264,6,0 -MT 3139 . G T, . base_quality;t_lod CONTQ=93;DP=6496;ECNT=16;MBQ=28,19,0;MFRL=338,298,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.335e-04;SAPP=7.416e-05,2.870e-04,1.000;TLOD=-3.303e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6310,4,0:2.413e-04,1.567e-04:6314:3036,4,0:3274,0,0 +MT 3138 . A C, . base_quality;t_lod CONTQ=93;DP=6493;ECNT=16;MBQ=28,6,0;MFRL=338,397,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6313,9,0:1.664e-04,1.567e-04:6322:3049,3,0:3264,6,0 +MT 3139 . G T, . base_quality;t_lod CONTQ=93;DP=6496;ECNT=16;MBQ=28,19,0;MFRL=338,298,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.303e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6310,4,0:2.413e-04,1.567e-04:6314:3036,4,0:3274,0,0 MT 3140 . A . . END=3145 GT:DP:MIN_DP:TLOD 0/0:6478:6468:-3.799e+00 -MT 3146 . G T, . base_quality;t_lod CONTQ=93;DP=6469;ECNT=16;MBQ=28,15,0;MFRL=338,299,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.428e-03;SAPP=1.543e-04,2.452e-04,1.000;TLOD=-3.369e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6292,9,0:2.127e-04,1.573e-04:6301:3017,5,0:3275,4,0 +MT 3146 . G T, . base_quality;t_lod CONTQ=93;DP=6469;ECNT=16;MBQ=28,15,0;MFRL=338,299,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.369e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6292,9,0:2.127e-04,1.573e-04:6301:3017,5,0:3275,4,0 MT 3147 . G . . END=3153 GT:DP:MIN_DP:TLOD 0/0:6432:6414:-3.792e+00 -MT 3154 . T G, . base_quality;t_lod CONTQ=93;DP=6467;ECNT=16;MBQ=28,7,0;MFRL=338,399,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.862e-03;SAPP=2.632e-04,2.723e-04,0.999;TLOD=-3.495e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6272,18,0:1.598e-04,1.577e-04:6290:3002,10,0:3270,8,0 +MT 3154 . T G, . base_quality;t_lod CONTQ=93;DP=6467;ECNT=16;MBQ=28,7,0;MFRL=338,399,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6272,18,0:1.598e-04,1.577e-04:6290:3002,10,0:3270,8,0 MT 3155 . C . . END=3159 GT:DP:MIN_DP:TLOD 0/0:7156:7123:-3.823e+00 MT 3160 . A . . END=3160 GT:DP:MIN_DP:TLOD 0/0:7078:7078:-2.872e+00 MT 3161 . G . . END=3172 GT:DP:MIN_DP:TLOD 0/0:7085:6938:-3.821e+00 @@ -1940,24 +1938,24 @@ MT 4751 . A . . END=4751 GT:DP:MIN_DP:TLOD 0/0:642:642:-2.766e+00 MT 4752 . T . . END=4752 GT:DP:MIN_DP:TLOD 0/0:637:637:-1.600e+00 MT 4753 . C . . END=4767 GT:DP:MIN_DP:TLOD 0/0:635:629:-2.831e+00 MT 4768 . T . . END=4768 GT:DP:MIN_DP:TLOD 0/0:793:793:-2.300e+00 -MT 4769 . A G,T, . PASS CONTQ=93;DP=869;ECNT=5;MBQ=11,28,10,0;MFRL=335,359,355,0;MMQ=60,40,57,0;MPOS=30,39,0;POPAF=7.30,7.30,7.30;SAAF=0.970,0.970,0.972;SAPP=0.013,0.073,0.914;TLOD=2232.86,-2.372e+00,-2.428e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:22,753,11,0:0.991,1.429e-03,1.246e-03:786:6,365,5,0:16,388,6,0 +MT 4769 . A G,T, . PASS CONTQ=93;DP=869;ECNT=5;MBQ=11,28,10,0;MFRL=335,359,355,0;MMQ=60,40,57,0;MPOS=30,39,0;POPAF=7.30,7.30,7.30;TLOD=2232.86,-2.372e+00,-2.428e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:22,753,11,0:0.991,1.429e-03,1.246e-03:786:6,365,5,0:16,388,6,0 MT 4770 . G . . END=4774 GT:DP:MIN_DP:TLOD 0/0:888:808:-2.967e+00 MT 4775 . A . . END=4775 GT:DP:MIN_DP:TLOD 0/0:1027:1027:-3.009e+00 -MT 4776 . G T, . base_quality;t_lod CONTQ=93;DP=1161;ECNT=5;MBQ=28,14,0;MFRL=345,182,0;MMQ=52,57,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.285e-04;SAPP=6.458e-04,3.593e-04,0.999;TLOD=-2.744e+00,-2.746e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1076,1,0:9.019e-04,8.981e-04:1077:515,0,0:561,1,0 +MT 4776 . G T, . base_quality;t_lod CONTQ=93;DP=1161;ECNT=5;MBQ=28,14,0;MFRL=345,182,0;MMQ=52,57,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-2.744e+00,-2.746e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1076,1,0:9.019e-04,8.981e-04:1077:515,0,0:561,1,0 MT 4777 . C . . END=4778 GT:DP:MIN_DP:TLOD 0/0:1132:1108:-3.052e+00 -MT 4779 . A G, . t_lod CONTQ=93;DP=1287;ECNT=5;MBQ=29,26,0;MFRL=344,384,0;MMQ=59,60,0;MPOS=68,0;POPAF=7.30,7.30;SAAF=0.00,0.010,8.368e-04;SAPP=5.719e-04,3.300e-04,0.999;TLOD=-2.544e+00,-2.791e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1194,1,0:1.234e-03,8.091e-04:1195:566,0,0:628,1,0 +MT 4779 . A G, . t_lod CONTQ=93;DP=1287;ECNT=5;MBQ=29,26,0;MFRL=344,384,0;MMQ=59,60,0;MPOS=68,0;POPAF=7.30,7.30;TLOD=-2.544e+00,-2.791e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1194,1,0:1.234e-03,8.091e-04:1195:566,0,0:628,1,0 MT 4780 . T . . END=4780 GT:DP:MIN_DP:TLOD 0/0:1240:1240:-3.056e+00 MT 4781 . A . . END=4781 GT:DP:MIN_DP:TLOD 0/0:1281:1281:-2.668e+00 MT 4782 . A . . END=4782 GT:DP:MIN_DP:TLOD 0/0:1324:1324:-3.040e+00 MT 4783 . A . . END=4783 GT:DP:MIN_DP:TLOD 0/0:1366:1366:-2.716e+00 MT 4784 . A . . END=4788 GT:DP:MIN_DP:TLOD 0/0:1481:1397:-3.163e+00 -MT 4789 . G T, . base_quality;t_lod CONTQ=93;DP=1713;ECNT=5;MBQ=28,13,0;MFRL=338,364,0;MMQ=60,56,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.230e-03;SAPP=8.160e-04,2.508e-04,0.999;TLOD=-2.917e+00,-2.919e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1624,2,0:6.055e-04,6.021e-04:1626:767,1,0:857,1,0 +MT 4789 . G T, . base_quality;t_lod CONTQ=93;DP=1713;ECNT=5;MBQ=28,13,0;MFRL=338,364,0;MMQ=60,56,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-2.917e+00,-2.919e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1624,2,0:6.055e-04,6.021e-04:1626:767,1,0:857,1,0 MT 4790 . A . . END=4791 GT:DP:MIN_DP:TLOD 0/0:1659:1641:-3.216e+00 MT 4792 . T . . END=4792 GT:DP:MIN_DP:TLOD 0/0:1709:1709:-2.964e+00 MT 4793 . A . . END=4796 GT:DP:MIN_DP:TLOD 0/0:1832:1748:-3.255e+00 MT 4797 . C . . END=4797 GT:DP:MIN_DP:TLOD 0/0:1963:1963:-2.953e+00 MT 4798 . C . . END=4799 GT:DP:MIN_DP:TLOD 0/0:1969:1958:-3.299e+00 -MT 4800 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=2162;ECNT=5;MBQ=28,0,0;MFRL=336,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=1.212e-04,2.034e-04,1.000;TLOD=-3.023e+00,-3.023e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2066,0,0:4.744e-04,4.744e-04:2066:961,0,0:1105,0,0 +MT 4800 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=2162;ECNT=5;MBQ=28,0,0;MFRL=336,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.023e+00,-3.023e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2066,0,0:4.744e-04,4.744e-04:2066:961,0,0:1105,0,0 MT 4801 . T . . END=4805 GT:DP:MIN_DP:TLOD 0/0:2281:2184:-3.369e+00 MT 4806 . T . . END=4806 GT:DP:MIN_DP:TLOD 0/0:2415:2415:-2.999e+00 MT 4807 . T . . END=4808 GT:DP:MIN_DP:TLOD 0/0:2489:2465:-3.398e+00 @@ -2571,38 +2569,38 @@ MT 6213 . C . . END=6216 GT:DP:MIN_DP:TLOD 0/0:5955:5879:-3.762e+00 MT 6217 . T . . END=6217 GT:DP:MIN_DP:TLOD 0/0:6076:6076:-2.742e+00 MT 6218 . A . . END=6218 GT:DP:MIN_DP:TLOD 0/0:6024:6024:-2.490e+00 MT 6219 . C . . END=6230 GT:DP:MIN_DP:TLOD 0/0:6397:6121:-3.796e+00 -MT 6231 . C A, . t_lod CONTQ=93;DP=6198;ECNT=18;MBQ=28,28,0;MFRL=342,341,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.900e-04;SAPP=1.800e-04,8.668e-05,1.000;TLOD=-3.353e+00,-3.488e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6120,3,0:2.207e-04,1.628e-04:6123:2914,0,0:3206,3,0 +MT 6231 . C A, . t_lod CONTQ=93;DP=6198;ECNT=18;MBQ=28,28,0;MFRL=342,341,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.353e+00,-3.488e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6120,3,0:2.207e-04,1.628e-04:6123:2914,0,0:3206,3,0 MT 6232 . T . . END=6232 GT:DP:MIN_DP:TLOD 0/0:6263:6263:-3.693e+00 -MT 6233 . A C,T, . base_quality;t_lod CONTQ=93;DP=6265;ECNT=18;MBQ=28,8,12,0;MFRL=341,380,347,0;MMQ=60,60,60,0;MPOS=33,46,0;POPAF=7.30,7.30,7.30;SAAF=0.020,0.010,0.018;SAPP=1.739e-15,1.000,2.440e-11;TLOD=-2.702e+00,-3.237e+00,-3.307e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6003,112,16,0:5.447e-04,1.927e-04,1.645e-04:6131:2853,61,7,0:3150,51,9,0 +MT 6233 . A C,T, . base_quality;t_lod CONTQ=93;DP=6265;ECNT=18;MBQ=28,8,12,0;MFRL=341,380,347,0;MMQ=60,60,60,0;MPOS=33,46,0;POPAF=7.30,7.30,7.30;TLOD=-2.702e+00,-3.237e+00,-3.307e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6003,112,16,0:5.447e-04,1.927e-04,1.645e-04:6131:2853,61,7,0:3150,51,9,0 MT 6234 . C . . END=6235 GT:DP:MIN_DP:TLOD 0/0:6373:6363:-3.789e+00 -MT 6236 . C A, . base_quality;t_lod CONTQ=93;DP=6389;ECNT=18;MBQ=28,11,0;MFRL=342,380,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.347e-04;SAPP=1.174e-04,1.299e-04,1.000;TLOD=-3.490e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6298,4,0:1.617e-04,1.579e-04:6302:3003,4,0:3295,0,0 +MT 6236 . C A, . base_quality;t_lod CONTQ=93;DP=6389;ECNT=18;MBQ=28,11,0;MFRL=342,380,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.490e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6298,4,0:1.617e-04,1.579e-04:6302:3003,4,0:3295,0,0 MT 6237 . C . . END=6242 GT:DP:MIN_DP:TLOD 0/0:6597:6522:-3.822e+00 -MT 6243 . G T, . base_quality;t_lod CONTQ=93;DP=6673;ECNT=18;MBQ=25,18,0;MFRL=342,353,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.216e-03;SAPP=7.706e-04,8.388e-05,0.999;TLOD=-3.231e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6573,8,0:2.827e-04,1.517e-04:6581:3124,6,0:3449,2,0 +MT 6243 . G T, . base_quality;t_lod CONTQ=93;DP=6673;ECNT=18;MBQ=25,18,0;MFRL=342,353,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.231e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6573,8,0:2.827e-04,1.517e-04:6581:3124,6,0:3449,2,0 MT 6244 . C . . END=6249 GT:DP:MIN_DP:TLOD 0/0:6740:6729:-3.808e+00 -MT 6250 . C A, . t_lod CONTQ=93;DP=6777;ECNT=18;MBQ=29,20,0;MFRL=342,398,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.069e-04;SAPP=4.661e-05,1.530e-03,0.998;TLOD=-3.356e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6587,4,0:2.172e-04,1.501e-04:6591:3121,0,0:3466,4,0 -MT 6251 . T G, . base_quality;t_lod CONTQ=93;DP=6776;ECNT=18;MBQ=29,8,0;MFRL=342,372,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.519e-03;SAPP=8.582e-05,7.887e-04,0.999;TLOD=-3.492e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,10,0:1.613e-04,1.503e-04:6585:3110,4,0:3465,6,0 -MT 6252 . A C, . base_quality;t_lod CONTQ=93;DP=6775;ECNT=18;MBQ=29,9,0;MFRL=342,346,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.731e-03;SAPP=0.116,5.389e-05,0.884;TLOD=-3.428e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6574,18,0:1.876e-04,1.503e-04:6592:3106,6,0:3468,12,0 +MT 6250 . C A, . t_lod CONTQ=93;DP=6777;ECNT=18;MBQ=29,20,0;MFRL=342,398,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.356e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6587,4,0:2.172e-04,1.501e-04:6591:3121,0,0:3466,4,0 +MT 6251 . T G, . base_quality;t_lod CONTQ=93;DP=6776;ECNT=18;MBQ=29,8,0;MFRL=342,372,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.492e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6575,10,0:1.613e-04,1.503e-04:6585:3110,4,0:3465,6,0 +MT 6252 . A C, . base_quality;t_lod CONTQ=93;DP=6775;ECNT=18;MBQ=29,9,0;MFRL=342,346,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.428e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6574,18,0:1.876e-04,1.503e-04:6592:3106,6,0:3468,12,0 MT 6253 . T . . END=6255 GT:DP:MIN_DP:TLOD 0/0:6728:6713:-3.821e+00 -MT 6256 . T C, . base_quality;t_lod CONTQ=93;DP=6771;ECNT=18;MBQ=29,9,0;MFRL=342,419,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.520e-03;SAPP=1.903e-03,7.058e-05,0.998;TLOD=-3.400e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6571,10,0:1.941e-04,1.504e-04:6581:3095,7,0:3476,3,0 +MT 6256 . T C, . base_quality;t_lod CONTQ=93;DP=6771;ECNT=18;MBQ=29,9,0;MFRL=342,419,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.400e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6571,10,0:1.941e-04,1.504e-04:6581:3095,7,0:3476,3,0 MT 6257 . G . . END=6259 GT:DP:MIN_DP:TLOD 0/0:6720:6686:-3.806e+00 -MT 6260 . G T, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=18;MBQ=28,6,0;MFRL=342,419,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.583e-04;SAPP=4.935e-04,6.659e-05,0.999;TLOD=-3.520e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6589,5,0:1.510e-04,1.505e-04:6594:3092,0,0:3497,5,0 -MT 6261 . G A, . PASS CONTQ=93;DP=6763;ECNT=18;MBQ=28,28,0;MFRL=327,342,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.992;SAPP=0.031,0.015,0.954;TLOD=20220.84,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:52,6501,0:0.995,1.513e-04:6553:26,3036,0:26,3465,0 +MT 6260 . G T, . base_quality;t_lod CONTQ=93;DP=6766;ECNT=18;MBQ=28,6,0;MFRL=342,419,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.520e+00,-3.521e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6589,5,0:1.510e-04,1.505e-04:6594:3092,0,0:3497,5,0 +MT 6261 . G A, . PASS CONTQ=93;DP=6763;ECNT=18;MBQ=28,28,0;MFRL=327,342,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20220.84,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:52,6501,0:0.995,1.513e-04:6553:26,3036,0:26,3465,0 MT 6262 . C . . END=6266 GT:DP:MIN_DP:TLOD 0/0:6662:6615:-3.823e+00 -MT 6267 . G T, . base_quality;t_lod CONTQ=93;DP=6722;ECNT=18;MBQ=28,12,0;MFRL=342,449,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.00,0.010,9.166e-04;SAPP=6.101e-03,4.765e-05,0.994;TLOD=-3.517e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6540,6,0:1.522e-04,1.516e-04:6546:3047,3,0:3493,3,0 +MT 6267 . G T, . base_quality;t_lod CONTQ=93;DP=6722;ECNT=18;MBQ=28,12,0;MFRL=342,449,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6540,6,0:1.522e-04,1.516e-04:6546:3047,3,0:3493,3,0 MT 6268 . C . . END=6271 GT:DP:MIN_DP:TLOD 0/0:6671:6651:-3.805e+00 -MT 6272 . A C, . base_quality;t_lod CONTQ=93;DP=6667;ECNT=18;MBQ=28,5,0;MFRL=342,419,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.310e-03;SAPP=0.025,8.794e-05,0.975;TLOD=-3.426e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,28,0:1.885e-04,1.529e-04:6497:2982,16,0:3487,12,0 +MT 6272 . A C, . base_quality;t_lod CONTQ=93;DP=6667;ECNT=18;MBQ=28,5,0;MFRL=342,419,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.426e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6469,28,0:1.885e-04,1.529e-04:6497:2982,16,0:3487,12,0 MT 6273 . A . . END=6277 GT:DP:MIN_DP:TLOD 0/0:6650:6604:-3.801e+00 -MT 6278 . T C, . base_quality;t_lod CONTQ=93;DP=6625;ECNT=18;MBQ=28,6,0;MFRL=341,402,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.654e-03;SAPP=1.000,1.166e-08,2.253e-04;TLOD=-3.385e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6416,30,0:2.066e-04,1.541e-04:6446:2955,10,0:3461,20,0 +MT 6278 . T C, . base_quality;t_lod CONTQ=93;DP=6625;ECNT=18;MBQ=28,6,0;MFRL=341,402,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.385e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6416,30,0:2.066e-04,1.541e-04:6446:2955,10,0:3461,20,0 MT 6279 . T . . END=6283 GT:DP:MIN_DP:TLOD 0/0:6604:6577:-3.817e+00 -MT 6284 . A C, . base_quality;t_lod CONTQ=93;DP=6582;ECNT=18;MBQ=29,5,0;MFRL=342,335,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.613e-03;SAPP=2.242e-04,6.519e-04,0.999;TLOD=-3.372e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6378,36,0:2.130e-04,1.551e-04:6414:2917,19,0:3461,17,0 +MT 6284 . A C, . base_quality;t_lod CONTQ=93;DP=6582;ECNT=18;MBQ=29,5,0;MFRL=342,335,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.372e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6378,36,0:2.130e-04,1.551e-04:6414:2917,19,0:3461,17,0 MT 6285 . G . . END=6285 GT:DP:MIN_DP:TLOD 0/0:6524:6524:-3.719e+00 -MT 6286 . T G, . base_quality;t_lod CONTQ=93;DP=6568;ECNT=18;MBQ=28,7,0;MFRL=341,393,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.289e-03;SAPP=8.773e-03,8.402e-05,0.991;TLOD=-3.463e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6364,21,0:1.728e-04,1.555e-04:6385:2921,8,0:3443,13,0 +MT 6286 . T G, . base_quality;t_lod CONTQ=93;DP=6568;ECNT=18;MBQ=28,7,0;MFRL=341,393,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.463e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6364,21,0:1.728e-04,1.555e-04:6385:2921,8,0:3443,13,0 MT 6287 . C . . END=6288 GT:DP:MIN_DP:TLOD 0/0:6548:6545:-3.810e+00 -MT 6289 . A T, . base_quality;t_lod CONTQ=93;DP=6548;ECNT=18;MBQ=28,13,0;MFRL=341,579,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.752e-04;SAPP=4.878e-05,8.319e-04,0.999;TLOD=-3.485e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6310,3,0:1.639e-04,1.567e-04:6313:2899,0,0:3411,3,0 +MT 6289 . A T, . base_quality;t_lod CONTQ=93;DP=6548;ECNT=18;MBQ=28,13,0;MFRL=341,579,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.485e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6310,3,0:1.639e-04,1.567e-04:6313:2899,0,0:3411,3,0 MT 6290 . C . . END=6290 GT:DP:MIN_DP:TLOD 0/0:6515:6515:-3.752e+00 -MT 6291 . C A, . base_quality;t_lod CONTQ=93;DP=6538;ECNT=18;MBQ=28,12,0;MFRL=341,359,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.424e-04;SAPP=9.588e-05,3.477e-04,1.000;TLOD=-3.505e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6361,6,0:1.562e-04,1.555e-04:6367:2910,2,0:3451,4,0 +MT 6291 . C A, . base_quality;t_lod CONTQ=93;DP=6538;ECNT=18;MBQ=28,12,0;MFRL=341,359,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.505e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6361,6,0:1.562e-04,1.555e-04:6367:2910,2,0:3451,4,0 MT 6292 . C . . END=6295 GT:DP:MIN_DP:TLOD 0/0:6535:6513:-3.813e+00 -MT 6296 . C A, . base_quality;t_lod CONTQ=93;DP=6518;ECNT=18;MBQ=29,12,0;MFRL=341,376,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.260e-03;SAPP=8.133e-04,8.503e-05,0.999;TLOD=-3.480e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6341,8,0:1.655e-04,1.560e-04:6349:2897,2,0:3444,6,0 +MT 6296 . C A, . base_quality;t_lod CONTQ=93;DP=6518;ECNT=18;MBQ=29,12,0;MFRL=341,376,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6341,8,0:1.655e-04,1.560e-04:6349:2897,2,0:3444,6,0 MT 6297 . T . . END=6304 GT:DP:MIN_DP:TLOD 0/0:7146:7015:-3.824e+00 MT 6305 . G . . END=6305 GT:DP:MIN_DP:TLOD 0/0:7040:7040:-3.393e+00 MT 6306 . A . . END=6309 GT:DP:MIN_DP:TLOD 0/0:7117:7093:-3.837e+00 @@ -2826,7 +2824,7 @@ MT 6991 . T . . END=6991 GT:DP:MIN_DP:TLOD 0/0:4425:4425:-3.364e+00 MT 6992 . A . . END=6992 GT:DP:MIN_DP:TLOD 0/0:4351:4351:-3.513e+00 MT 6993 . G . . END=6995 GT:DP:MIN_DP:TLOD 0/0:4254:4194:-3.333e+00 MT 6996 . A . . END=6996 GT:DP:MIN_DP:TLOD 0/0:4172:4172:-3.579e+00 -MT 6997 . T G, . base_quality;t_lod CONTQ=93;DP=3913;ECNT=5;MBQ=28,7,0;MFRL=337,276,0;MMQ=60,57,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.133e-03;SAPP=4.203e-04,3.133e-04,0.999;TLOD=-3.254e+00,-3.285e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3818,12,0:2.785e-04,2.595e-04:3830:2021,7,0:1797,5,0 +MT 6997 . T G, . base_quality;t_lod CONTQ=93;DP=3913;ECNT=5;MBQ=28,7,0;MFRL=337,276,0;MMQ=60,57,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.254e+00,-3.285e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3818,12,0:2.785e-04,2.595e-04:3830:2021,7,0:1797,5,0 MT 6998 . C . . END=6998 GT:DP:MIN_DP:TLOD 0/0:3793:3793:-3.498e+00 MT 6999 . G . . END=7001 GT:DP:MIN_DP:TLOD 0/0:3723:3674:-3.569e+00 MT 7002 . C . . END=7002 GT:DP:MIN_DP:TLOD 0/0:3628:3628:-3.485e+00 @@ -2836,18 +2834,18 @@ MT 7007 . C . . END=7007 GT:DP:MIN_DP:TLOD 0/0:3404:3404:-3.507e+00 MT 7008 . G . . END=7008 GT:DP:MIN_DP:TLOD 0/0:3334:3334:-3.495e+00 MT 7009 . A . . END=7010 GT:DP:MIN_DP:TLOD 0/0:3303:3281:-3.517e+00 MT 7011 . A . . END=7019 GT:DP:MIN_DP:TLOD 0/0:3052:2868:-3.482e+00 -MT 7020 . G T, . base_quality;t_lod CONTQ=93;DP=2923;ECNT=5;MBQ=26,15,0;MFRL=338,404,0;MMQ=60,59,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.120e-03;SAPP=8.032e-04,2.035e-04,0.999;TLOD=-3.118e+00,-3.155e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2824,6,0:3.811e-04,3.499e-04:2830:1499,4,0:1325,2,0 +MT 7020 . G T, . base_quality;t_lod CONTQ=93;DP=2923;ECNT=5;MBQ=26,15,0;MFRL=338,404,0;MMQ=60,59,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.118e+00,-3.155e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2824,6,0:3.811e-04,3.499e-04:2830:1499,4,0:1325,2,0 MT 7021 . T . . END=7027 GT:DP:MIN_DP:TLOD 0/0:2648:2510:-3.415e+00 -MT 7028 . C T, . PASS CONTQ=93;DP=2585;ECNT=5;MBQ=23,28,0;MFRL=341,339,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.993;SAPP=0.015,0.051,0.934;TLOD=7889.61,-3.101e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:17,2479,0:0.996,3.961e-04:2496:6,1306,0:11,1173,0 +MT 7028 . C T, . PASS CONTQ=93;DP=2585;ECNT=5;MBQ=23,28,0;MFRL=341,339,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=7889.61,-3.101e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:17,2479,0:0.996,3.961e-04:2496:6,1306,0:11,1173,0 MT 7029 . C . . END=7037 GT:DP:MIN_DP:TLOD 0/0:2259:2069:-3.362e+00 -MT 7038 . T G, . base_quality;t_lod CONTQ=93;DP=2142;ECNT=5;MBQ=29,6,0;MFRL=340,343,0;MMQ=60,59,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.910e-03;SAPP=6.342e-04,4.945e-04,0.999;TLOD=-2.137e+00,-3.017e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2038,8,0:9.468e-04,4.810e-04:2046:1096,6,0:942,2,0 +MT 7038 . T G, . base_quality;t_lod CONTQ=93;DP=2142;ECNT=5;MBQ=29,6,0;MFRL=340,343,0;MMQ=60,59,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-2.137e+00,-3.017e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2038,8,0:9.468e-04,4.810e-04:2046:1096,6,0:942,2,0 MT 7039 . A . . END=7049 GT:DP:MIN_DP:TLOD 0/0:1760:1518:-3.290e+00 MT 7050 . A . . END=7050 GT:DP:MIN_DP:TLOD 0/0:1458:1458:-2.871e+00 MT 7051 . T . . END=7056 GT:DP:MIN_DP:TLOD 0/0:1293:1178:-3.112e+00 MT 7057 . C . . END=7058 GT:DP:MIN_DP:TLOD 0/0:1120:1096:-3.000e+00 MT 7059 . G . . END=7060 GT:DP:MIN_DP:TLOD 0/0:1034:1007:-3.019e+00 MT 7061 . A . . END=7061 GT:DP:MIN_DP:TLOD 0/0:966:966:-2.694e+00 -MT 7062 . T G, . t_lod CONTQ=93;DP=1044;ECNT=5;MBQ=28,27,0;MFRL=337,196,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.00,9.588e-04;SAPP=3.021e-04,8.765e-04,0.999;TLOD=-2.380e+00,-2.718e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1042,1,0:1.554e-03,9.562e-04:1043:549,1,0:493,0,0 +MT 7062 . T G, . t_lod CONTQ=93;DP=1044;ECNT=5;MBQ=28,27,0;MFRL=337,196,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-2.380e+00,-2.718e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1042,1,0:1.554e-03,9.562e-04:1043:549,1,0:493,0,0 MT 7063 . T . . END=7073 GT:DP:MIN_DP:TLOD 0/0:661:455:-2.952e+00 MT 7074 . G . . END=7074 GT:DP:MIN_DP:TLOD 0/0:404:404:-2.489e+00 MT 7075 . G . . END=7075 GT:DP:MIN_DP:TLOD 0/0:362:362:-2.537e+00 @@ -3477,31 +3475,31 @@ MT 8654 . T . . END=8654 GT:DP:MIN_DP:TLOD 0/0:6472:6472:-3.452e+00 MT 8655 . C . . END=8658 GT:DP:MIN_DP:TLOD 0/0:6507:6441:-3.816e+00 MT 8659 . A . . END=8659 GT:DP:MIN_DP:TLOD 0/0:6398:6398:-2.928e+00 MT 8660 . C . . END=8668 GT:DP:MIN_DP:TLOD 0/0:6175:5883:-3.801e+00 -MT 8669 . G A, . base_quality;t_lod CONTQ=93;DP=5328;ECNT=15;MBQ=28,11,0;MFRL=341,363,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.342e-03;SAPP=3.525e-04,1.489e-04,0.999;TLOD=-3.416e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5211,7,0:1.920e-04,1.908e-04:5218:2525,3,0:2686,4,0 +MT 8669 . G A, . base_quality;t_lod CONTQ=93;DP=5328;ECNT=15;MBQ=28,11,0;MFRL=341,363,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.416e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5211,7,0:1.920e-04,1.908e-04:5218:2525,3,0:2686,4,0 MT 8670 . A . . END=8670 GT:DP:MIN_DP:TLOD 0/0:5306:5306:-3.564e+00 -MT 8671 . C A, . base_quality;t_lod CONTQ=93;DP=5244;ECNT=15;MBQ=28,12,0;MFRL=341,278,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.764e-04;SAPP=1.451e-04,1.963e-04,1.000;TLOD=-3.412e+00,-3.413e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5148,4,0:1.937e-04,1.930e-04:5152:2488,2,0:2660,2,0 -MT 8672 . T A, . base_quality;t_lod CONTQ=93;DP=5197;ECNT=15;MBQ=29,13,0;MFRL=341,370,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.175e-03;SAPP=1.301e-03,8.190e-05,0.999;TLOD=-3.270e+00,-3.409e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5099,6,0:2.658e-04,1.949e-04:5105:2467,2,0:2632,4,0 +MT 8671 . C A, . base_quality;t_lod CONTQ=93;DP=5244;ECNT=15;MBQ=28,12,0;MFRL=341,278,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.412e+00,-3.413e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5148,4,0:1.937e-04,1.930e-04:5152:2488,2,0:2660,2,0 +MT 8672 . T A, . base_quality;t_lod CONTQ=93;DP=5197;ECNT=15;MBQ=29,13,0;MFRL=341,370,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.270e+00,-3.409e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5099,6,0:2.658e-04,1.949e-04:5105:2467,2,0:2632,4,0 MT 8673 . A . . END=8675 GT:DP:MIN_DP:TLOD 0/0:5135:5094:-3.700e+00 -MT 8676 . C A, . base_quality;t_lod CONTQ=93;DP=5046;ECNT=15;MBQ=28,12,0;MFRL=343,341,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.054e-04;SAPP=8.921e-05,4.201e-04,0.999;TLOD=-3.334e+00,-3.397e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4952,3,0:2.307e-04,2.005e-04:4955:2389,2,0:2563,1,0 +MT 8676 . C A, . base_quality;t_lod CONTQ=93;DP=5046;ECNT=15;MBQ=28,12,0;MFRL=343,341,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.334e+00,-3.397e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4952,3,0:2.307e-04,2.005e-04:4955:2389,2,0:2563,1,0 MT 8677 . A . . END=8678 GT:DP:MIN_DP:TLOD 0/0:5002:4976:-3.702e+00 -MT 8679 . A C, . base_quality;t_lod CONTQ=93;DP=4922;ECNT=15;MBQ=28,7,0;MFRL=343,339,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.864e-03;SAPP=4.410e-04,1.639e-04,0.999;TLOD=-3.314e+00,-3.385e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4820,9,0:2.425e-04,2.059e-04:4829:2320,4,0:2500,5,0 +MT 8679 . A C, . base_quality;t_lod CONTQ=93;DP=4922;ECNT=15;MBQ=28,7,0;MFRL=343,339,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.314e+00,-3.385e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4820,9,0:2.425e-04,2.059e-04:4829:2320,4,0:2500,5,0 MT 8680 . C . . END=8680 GT:DP:MIN_DP:TLOD 0/0:4880:4880:-3.284e+00 MT 8681 . T . . END=8682 GT:DP:MIN_DP:TLOD 0/0:4833:4815:-3.635e+00 -MT 8683 . A G, . base_quality;t_lod CONTQ=93;DP=4756;ECNT=15;MBQ=28,6,0;MFRL=343,417,0;MMQ=60,59,0;MPOS=57,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.149e-03;SAPP=1.612e-04,7.422e-04,0.999;TLOD=-3.109e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4643,10,0:3.662e-04,2.138e-04:4653:2225,10,0:2418,0,0 +MT 8683 . A G, . base_quality;t_lod CONTQ=93;DP=4756;ECNT=15;MBQ=28,6,0;MFRL=343,417,0;MMQ=60,59,0;MPOS=57,0;POPAF=7.30,7.30;TLOD=-3.109e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4643,10,0:3.662e-04,2.138e-04:4653:2225,10,0:2418,0,0 MT 8684 . C . . END=8688 GT:DP:MIN_DP:TLOD 0/0:4632:4566:-3.667e+00 -MT 8689 . A C, . base_quality;t_lod CONTQ=93;DP=4519;ECNT=15;MBQ=29,8,0;MFRL=344,309,0;MMQ=60,58,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.154e-03;SAPP=2.527e-04,5.239e-04,0.999;TLOD=-3.342e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4425,14,0:2.276e-04,2.243e-04:4439:2128,9,0:2297,5,0 -MT 8690 . A C, . base_quality;t_lod CONTQ=93;DP=4485;ECNT=15;MBQ=28,8,0;MFRL=344,348,0;MMQ=60,59,0;MPOS=60,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.549e-03;SAPP=1.880e-04,2.209e-03,0.998;TLOD=-3.326e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4377,20,0:2.362e-04,2.265e-04:4397:2105,11,0:2272,9,0 +MT 8689 . A C, . base_quality;t_lod CONTQ=93;DP=4519;ECNT=15;MBQ=29,8,0;MFRL=344,309,0;MMQ=60,58,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.342e+00,-3.348e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4425,14,0:2.276e-04,2.243e-04:4439:2128,9,0:2297,5,0 +MT 8690 . A C, . base_quality;t_lod CONTQ=93;DP=4485;ECNT=15;MBQ=28,8,0;MFRL=344,348,0;MMQ=60,59,0;MPOS=60,0;POPAF=7.30,7.30;TLOD=-3.326e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4377,20,0:2.362e-04,2.265e-04:4397:2105,11,0:2272,9,0 MT 8691 . A . . END=8691 GT:DP:MIN_DP:TLOD 0/0:4437:4437:-3.618e+00 -MT 8692 . C A, . base_quality;t_lod CONTQ=93;DP=4403;ECNT=15;MBQ=28,14,0;MFRL=344,511,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.852e-03;SAPP=6.066e-03,8.317e-05,0.994;TLOD=-2.973e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4311,8,0:4.433e-04,2.301e-04:4319:2062,7,0:2249,1,0 +MT 8692 . C A, . base_quality;t_lod CONTQ=93;DP=4403;ECNT=15;MBQ=28,14,0;MFRL=344,511,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-2.973e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4311,8,0:4.433e-04,2.301e-04:4319:2062,7,0:2249,1,0 MT 8693 . A . . END=8693 GT:DP:MIN_DP:TLOD 0/0:4364:4364:-3.615e+00 -MT 8694 . A C, . base_quality;t_lod CONTQ=93;DP=4324;ECNT=15;MBQ=29,7,0;MFRL=344,389,0;MMQ=60,59,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.773e-03;SAPP=7.493e-03,1.210e-04,0.992;TLOD=-3.249e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4225,16,0:2.816e-04,2.345e-04:4241:2032,7,0:2193,9,0 +MT 8694 . A C, . base_quality;t_lod CONTQ=93;DP=4324;ECNT=15;MBQ=29,7,0;MFRL=344,389,0;MMQ=60,59,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.249e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4225,16,0:2.816e-04,2.345e-04:4241:2032,7,0:2193,9,0 MT 8695 . A . . END=8696 GT:DP:MIN_DP:TLOD 0/0:4239:4203:-3.622e+00 -MT 8697 . G A, . base_quality;t_lod CONTQ=93;DP=4215;ECNT=15;MBQ=28,10,0;MFRL=345,376,0;MMQ=60,57,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.182e-03;SAPP=0.014,8.373e-05,0.986;TLOD=-3.312e+00,-3.317e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4115,9,0:2.436e-04,2.411e-04:4124:1966,7,0:2149,2,0 +MT 8697 . G A, . base_quality;t_lod CONTQ=93;DP=4215;ECNT=15;MBQ=28,10,0;MFRL=345,376,0;MMQ=60,57,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.312e+00,-3.317e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4115,9,0:2.436e-04,2.411e-04:4124:1966,7,0:2149,2,0 MT 8698 . A . . END=8698 GT:DP:MIN_DP:TLOD 0/0:4128:4128:-3.366e+00 MT 8699 . T . . END=8700 GT:DP:MIN_DP:TLOD 0/0:4068:4050:-3.601e+00 -MT 8701 . A G,T, . PASS CONTQ=93;DP=4061;ECNT=15;MBQ=28,28,12,0;MFRL=312,345,411,0;MMQ=60,60,60,0;MPOS=52,43,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.980,0.986;SAPP=7.873e-04,0.887,0.112;TLOD=12367.69,-3.118e+00,-3.123e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:55,3893,7,0:0.989,2.543e-04,2.510e-04:3955:28,1852,3,0:27,2041,4,0 +MT 8701 . A G,T, . PASS CONTQ=93;DP=4061;ECNT=15;MBQ=28,28,12,0;MFRL=312,345,411,0;MMQ=60,60,60,0;MPOS=52,43,0;POPAF=7.30,7.30,7.30;TLOD=12367.69,-3.118e+00,-3.123e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:55,3893,7,0:0.989,2.543e-04,2.510e-04:3955:28,1852,3,0:27,2041,4,0 MT 8702 . C . . END=8702 GT:DP:MIN_DP:TLOD 0/0:3945:3945:-3.582e+00 -MT 8703 . C A, . base_quality;t_lod CONTQ=93;DP=3968;ECNT=15;MBQ=29,13,0;MFRL=345,371,0;MMQ=60,57,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.748e-04;SAPP=5.644e-04,9.784e-05,0.999;TLOD=-3.289e+00,-3.291e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3869,3,0:2.567e-04,2.558e-04:3872:1848,0,0:2021,3,0 +MT 8703 . C A, . base_quality;t_lod CONTQ=93;DP=3968;ECNT=15;MBQ=29,13,0;MFRL=345,371,0;MMQ=60,57,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.289e+00,-3.291e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3869,3,0:2.567e-04,2.558e-04:3872:1848,0,0:2021,3,0 MT 8704 . A . . END=8707 GT:DP:MIN_DP:TLOD 0/0:3872:3844:-3.583e+00 MT 8708 . A . . END=8708 GT:DP:MIN_DP:TLOD 0/0:3869:3869:-3.460e+00 MT 8709 . C . . END=8709 GT:DP:MIN_DP:TLOD 0/0:3850:3850:-3.582e+00 @@ -3510,14 +3508,14 @@ MT 8711 . A . . END=8711 GT:DP:MIN_DP:TLOD 0/0:3861:3861:-3.569e+00 MT 8712 . C . . END=8712 GT:DP:MIN_DP:TLOD 0/0:3836:3836:-3.375e+00 MT 8713 . A . . END=8715 GT:DP:MIN_DP:TLOD 0/0:3846:3834:-3.581e+00 MT 8716 . A . . END=8716 GT:DP:MIN_DP:TLOD 0/0:3846:3846:-3.498e+00 -MT 8717 . A C, . base_quality;t_lod CONTQ=93;DP=3844;ECNT=15;MBQ=28,7,0;MFRL=346,363,0;MMQ=60,59,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.862e-03;SAPP=6.728e-04,2.228e-04,0.999;TLOD=-3.274e+00,-3.282e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3832,11,0:2.663e-04,2.611e-04:3843:1825,3,0:2007,8,0 +MT 8717 . A C, . base_quality;t_lod CONTQ=93;DP=3844;ECNT=15;MBQ=28,7,0;MFRL=346,363,0;MMQ=60,59,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.274e+00,-3.282e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3832,11,0:2.663e-04,2.611e-04:3843:1825,3,0:2007,8,0 MT 8718 . A . . END=8721 GT:DP:MIN_DP:TLOD 0/0:3810:3741:-3.589e+00 MT 8722 . C . . END=8723 GT:DP:MIN_DP:TLOD 0/0:3612:3566:-3.429e+00 MT 8724 . A . . END=8727 GT:DP:MIN_DP:TLOD 0/0:3528:3461:-3.549e+00 MT 8728 . T . . END=8728 GT:DP:MIN_DP:TLOD 0/0:3394:3394:-3.197e+00 MT 8729 . G . . END=8729 GT:DP:MIN_DP:TLOD 0/0:3334:3334:-3.505e+00 MT 8730 . A . . END=8734 GT:DP:MIN_DP:TLOD 0/0:3199:3129:-3.498e+00 -MT 8735 . T A, . base_quality;t_lod CONTQ=93;DP=3252;ECNT=15;MBQ=28,12,0;MFRL=348,327,0;MMQ=60,57,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.343e-04;SAPP=1.366e-03,8.057e-05,0.999;TLOD=-3.201e+00,-3.202e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3151,2,0:3.146e-04,3.137e-04:3153:1470,0,0:1681,2,0 +MT 8735 . T A, . base_quality;t_lod CONTQ=93;DP=3252;ECNT=15;MBQ=28,12,0;MFRL=348,327,0;MMQ=60,57,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.201e+00,-3.202e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3151,2,0:3.146e-04,3.137e-04:3153:1470,0,0:1681,2,0 MT 8736 . T . . END=8743 GT:DP:MIN_DP:TLOD 0/0:3126:2955:-3.475e+00 MT 8744 . T . . END=8744 GT:DP:MIN_DP:TLOD 0/0:2911:2911:-2.997e+00 MT 8745 . A . . END=8750 GT:DP:MIN_DP:TLOD 0/0:2760:2645:-3.426e+00 @@ -3562,7 +3560,7 @@ MT 8856 . G . . END=8856 GT:DP:MIN_DP:TLOD 0/0:440:440:0.013 MT 8857 . G . . END=8857 GT:DP:MIN_DP:TLOD 0/0:501:501:-1.829e+00 MT 8858 . G . . END=8858 GT:DP:MIN_DP:TLOD 0/0:541:541:-2.468e+00 MT 8859 . C . . END=8859 GT:DP:MIN_DP:TLOD 0/0:549:549:-2.718e+00 -MT 8860 . A G, . PASS CONTQ=93;DP=515;ECNT=1;MBQ=2,24,0;MFRL=354,367,0;MMQ=58,39,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.998;SAPP=0.025,0.029,0.946;TLOD=1416.29,-2.408e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,512,0:0.996,1.950e-03:513:0,248,0:1,264,0 +MT 8860 . A G, . PASS CONTQ=93;DP=515;ECNT=1;MBQ=2,24,0;MFRL=354,367,0;MMQ=58,39,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=1416.29,-2.408e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:1,512,0:0.996,1.950e-03:513:0,248,0:1,264,0 MT 8861 . C . . END=8868 GT:DP:MIN_DP:TLOD 0/0:553:522:-2.745e+00 MT 8869 . A . . END=8869 GT:DP:MIN_DP:TLOD 0/0:524:524:-1.758e+00 MT 8870 . T . . END=8871 GT:DP:MIN_DP:TLOD 0/0:524:524:-2.714e+00 @@ -3612,68 +3610,68 @@ MT 8985 . A . . END=8988 GT:DP:MIN_DP:TLOD 0/0:4038:3986:-3.498e+00 MT 8989 . G . . END=8991 GT:DP:MIN_DP:TLOD 0/0:4218:4111:-3.618e+00 MT 8992 . C . . END=8992 GT:DP:MIN_DP:TLOD 0/0:4349:4349:-3.377e+00 MT 8993 . T . . END=8998 GT:DP:MIN_DP:TLOD 0/0:4442:4350:-3.639e+00 -MT 8999 . T C, . PASS CONTQ=93;DP=4214;ECNT=33;MBQ=28,28,0;MFRL=308,334,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.994;SAPP=0.015,0.050,0.936;TLOD=13169.63,-3.319e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:23,4118,0:0.995,2.401e-04:4141:14,1944,0:9,2174,0 +MT 8999 . T C, . PASS CONTQ=93;DP=4214;ECNT=33;MBQ=28,28,0;MFRL=308,334,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=13169.63,-3.319e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:23,4118,0:0.995,2.401e-04:4141:14,1944,0:9,2174,0 MT 9000 . A . . END=9001 GT:DP:MIN_DP:TLOD 0/0:4285:4262:-3.635e+00 MT 9002 . G . . END=9002 GT:DP:MIN_DP:TLOD 0/0:4310:4310:-3.247e+00 MT 9003 . C . . END=9013 GT:DP:MIN_DP:TLOD 0/0:4547:4387:-3.667e+00 -MT 9014 . A T, . base_quality;t_lod CONTQ=93;DP=4738;ECNT=33;MBQ=29,12,0;MFRL=331,525,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.453e-04;SAPP=1.836e-04,1.379e-04,1.000;TLOD=-3.368e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4646,3,0:2.141e-04,2.135e-04:4649:2191,3,0:2455,0,0 +MT 9014 . A T, . base_quality;t_lod CONTQ=93;DP=4738;ECNT=33;MBQ=29,12,0;MFRL=331,525,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.368e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4646,3,0:2.141e-04,2.135e-04:4649:2191,3,0:2455,0,0 MT 9015 . C . . END=9016 GT:DP:MIN_DP:TLOD 0/0:4844:4826:-3.681e+00 -MT 9017 . T C, . base_quality;t_lod CONTQ=93;DP=4864;ECNT=33;MBQ=29,8,0;MFRL=331,530,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.466e-03;SAPP=9.358e-05,1.291e-03,0.999;TLOD=-3.356e+00,-3.380e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4769,7,0:2.204e-04,2.082e-04:4776:2248,6,0:2521,1,0 +MT 9017 . T C, . base_quality;t_lod CONTQ=93;DP=4864;ECNT=33;MBQ=29,8,0;MFRL=331,530,0;MMQ=60,60,0;MPOS=44,0;POPAF=7.30,7.30;TLOD=-3.356e+00,-3.380e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4769,7,0:2.204e-04,2.082e-04:4776:2248,6,0:2521,1,0 MT 9018 . T . . END=9023 GT:DP:MIN_DP:TLOD 0/0:5051:4938:-3.702e+00 -MT 9024 . A C, . base_quality;t_lod CONTQ=93;DP=5135;ECNT=33;MBQ=29,3,0;MFRL=331,351,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.368e-03;SAPP=9.845e-05,8.286e-03,0.992;TLOD=-3.363e+00,-3.404e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5030,17,0:2.173e-04,1.972e-04:5047:2369,8,0:2661,9,0 +MT 9024 . A C, . base_quality;t_lod CONTQ=93;DP=5135;ECNT=33;MBQ=29,3,0;MFRL=331,351,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.363e+00,-3.404e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5030,17,0:2.173e-04,1.972e-04:5047:2369,8,0:2661,9,0 MT 9025 . G . . END=9030 GT:DP:MIN_DP:TLOD 0/0:5323:5171:-3.734e+00 -MT 9031 . C A, . base_quality;t_lod CONTQ=93;DP=5422;ECNT=33;MBQ=29,11,0;MFRL=332,499,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.873e-04;SAPP=5.180e-05,2.221e-04,1.000;TLOD=-3.429e+00,-3.429e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5338,1,0:1.862e-04,1.860e-04:5339:2524,0,0:2814,1,0 +MT 9031 . C A, . base_quality;t_lod CONTQ=93;DP=5422;ECNT=33;MBQ=29,11,0;MFRL=332,499,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.429e+00,-3.429e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5338,1,0:1.862e-04,1.860e-04:5339:2524,0,0:2814,1,0 MT 9032 . T . . END=9032 GT:DP:MIN_DP:TLOD 0/0:5519:5519:-3.702e+00 -MT 9033 . A G, . base_quality;t_lod CONTQ=93;DP=5499;ECNT=33;MBQ=29,7,0;MFRL=332,440,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.302e-03;SAPP=1.220e-04,4.410e-04,0.999;TLOD=-3.361e+00,-3.432e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5368,7,0:2.175e-04,1.848e-04:5375:2537,5,0:2831,2,0 +MT 9033 . A G, . base_quality;t_lod CONTQ=93;DP=5499;ECNT=33;MBQ=29,7,0;MFRL=332,440,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.361e+00,-3.432e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5368,7,0:2.175e-04,1.848e-04:5375:2537,5,0:2831,2,0 MT 9034 . C . . END=9035 GT:DP:MIN_DP:TLOD 0/0:5630:5603:-3.744e+00 -MT 9036 . C A, . t_lod CONTQ=93;DP=5614;ECNT=33;MBQ=28,25,0;MFRL=333,296,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.037e-04;SAPP=4.115e-04,9.754e-05,0.999;TLOD=-3.123e+00,-3.444e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5528,5,0:3.460e-04,1.798e-04:5533:2617,3,0:2911,2,0 +MT 9036 . C A, . t_lod CONTQ=93;DP=5614;ECNT=33;MBQ=28,25,0;MFRL=333,296,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.123e+00,-3.444e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5528,5,0:3.460e-04,1.798e-04:5533:2617,3,0:2911,2,0 MT 9037 . A . . END=9038 GT:DP:MIN_DP:TLOD 0/0:5744:5727:-3.747e+00 -MT 9039 . G T, . base_quality;t_lod CONTQ=93;DP=5739;ECNT=33;MBQ=28,11,0;MFRL=332,401,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.554e-04;SAPP=9.790e-05,1.473e-04,1.000;TLOD=-3.451e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5626,2,0:1.768e-04,1.765e-04:5628:2660,1,0:2966,1,0 +MT 9039 . G T, . base_quality;t_lod CONTQ=93;DP=5739;ECNT=33;MBQ=28,11,0;MFRL=332,401,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.451e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5626,2,0:1.768e-04,1.765e-04:5628:2660,1,0:2966,1,0 MT 9040 . C . . END=9044 GT:DP:MIN_DP:TLOD 0/0:5908:5846:-3.751e+00 -MT 9045 . A C, . base_quality;t_lod CONTQ=93;DP=5953;ECNT=33;MBQ=29,8,0;MFRL=333,331,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.329e-03;SAPP=1.990e-04,1.702e-03,0.998;TLOD=-3.416e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5809,37,0:1.925e-04,1.708e-04:5846:2730,24,0:3079,13,0 +MT 9045 . A C, . base_quality;t_lod CONTQ=93;DP=5953;ECNT=33;MBQ=29,8,0;MFRL=333,331,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.416e+00,-3.467e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5809,37,0:1.925e-04,1.708e-04:5846:2730,24,0:3079,13,0 MT 9046 . A . . END=9048 GT:DP:MIN_DP:TLOD 0/0:6063:6019:-3.758e+00 -MT 9049 . G T, . base_quality;t_lod CONTQ=93;DP=6102;ECNT=33;MBQ=28,11,0;MFRL=334,367,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.169e-03;SAPP=1.128e-03,7.984e-05,0.999;TLOD=-3.445e+00,-3.479e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5980,7,0:1.793e-04,1.661e-04:5987:2820,4,0:3160,3,0 -MT 9050 . G T, . base_quality;t_lod CONTQ=93;DP=6120;ECNT=33;MBQ=28,12,0;MFRL=334,366,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.332e-03;SAPP=2.636e-04,1.558e-04,1.000;TLOD=-3.348e+00,-3.480e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6000,8,0:2.207e-04,1.656e-04:6008:2828,5,0:3172,3,0 +MT 9049 . G T, . base_quality;t_lod CONTQ=93;DP=6102;ECNT=33;MBQ=28,11,0;MFRL=334,367,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.445e+00,-3.479e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5980,7,0:1.793e-04,1.661e-04:5987:2820,4,0:3160,3,0 +MT 9050 . G T, . base_quality;t_lod CONTQ=93;DP=6120;ECNT=33;MBQ=28,12,0;MFRL=334,366,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.348e+00,-3.480e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6000,8,0:2.207e-04,1.656e-04:6008:2828,5,0:3172,3,0 MT 9051 . A . . END=9051 GT:DP:MIN_DP:TLOD 0/0:6201:6201:-2.992e+00 MT 9052 . A . . END=9052 GT:DP:MIN_DP:TLOD 0/0:6228:6228:-3.399e+00 MT 9053 . G . . END=9057 GT:DP:MIN_DP:TLOD 0/0:6261:6220:-3.796e+00 MT 9058 . A . . END=9058 GT:DP:MIN_DP:TLOD 0/0:6446:6446:-3.396e+00 MT 9059 . C . . END=9063 GT:DP:MIN_DP:TLOD 0/0:6530:6470:-3.807e+00 -MT 9064 . G A, . base_quality;t_lod CONTQ=93;DP=6581;ECNT=33;MBQ=28,6,0;MFRL=335,337,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.398e-04;SAPP=1.329e-04,2.067e-04,1.000;TLOD=-3.054e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6378,6,0:2.708e-04,1.551e-04:6384:2988,1,0:3390,5,0 -MT 9065 . C A, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=33;MBQ=29,12,0;MFRL=335,314,0;MMQ=60,59,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.376e-04;SAPP=8.393e-05,4.554e-04,0.999;TLOD=-3.310e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6393,6,0:2.376e-04,1.546e-04:6399:2994,0,0:3399,6,0 +MT 9064 . G A, . base_quality;t_lod CONTQ=93;DP=6581;ECNT=33;MBQ=28,6,0;MFRL=335,337,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.054e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6378,6,0:2.708e-04,1.551e-04:6384:2988,1,0:3390,5,0 +MT 9065 . C A, . base_quality;t_lod CONTQ=93;DP=6585;ECNT=33;MBQ=29,12,0;MFRL=335,314,0;MMQ=60,59,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.310e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6393,6,0:2.376e-04,1.546e-04:6399:2994,0,0:3399,6,0 MT 9066 . A . . END=9066 GT:DP:MIN_DP:TLOD 0/0:6552:6552:-3.626e+00 -MT 9067 . A C, . base_quality;t_lod CONTQ=93;DP=6580;ECNT=33;MBQ=29,7,0;MFRL=335,386,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.069e-03;SAPP=4.100e-04,2.912e-04,0.999;TLOD=-3.466e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6363,26,0:1.713e-04,1.551e-04:6389:2968,9,0:3395,17,0 +MT 9067 . A C, . base_quality;t_lod CONTQ=93;DP=6580;ECNT=33;MBQ=29,7,0;MFRL=335,386,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.466e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6363,26,0:1.713e-04,1.551e-04:6389:2968,9,0:3395,17,0 MT 9068 . T . . END=9070 GT:DP:MIN_DP:TLOD 0/0:6531:6516:-3.767e+00 -MT 9071 . C A, . base_quality;t_lod CONTQ=93;DP=6582;ECNT=33;MBQ=28,9,0;MFRL=335,295,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.244e-04;SAPP=2.272e-04,8.238e-05,1.000;TLOD=-2.753e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6402,4,0:2.939e-04,1.546e-04:6406:2977,2,0:3425,2,0 +MT 9071 . C A, . base_quality;t_lod CONTQ=93;DP=6582;ECNT=33;MBQ=28,9,0;MFRL=335,295,0;MMQ=60,60,0;MPOS=51,0;POPAF=7.30,7.30;TLOD=-2.753e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6402,4,0:2.939e-04,1.546e-04:6406:2977,2,0:3425,2,0 MT 9072 . A . . END=9072 GT:DP:MIN_DP:TLOD 0/0:6564:6564:-3.751e+00 -MT 9073 . A C, . base_quality;t_lod CONTQ=93;DP=6545;ECNT=33;MBQ=28,7,0;MFRL=333,355,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.854e-03;SAPP=1.182e-04,3.975e-03,0.996;TLOD=-3.456e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6356,31,0:1.758e-04,1.557e-04:6387:2949,15,0:3407,16,0 +MT 9073 . A C, . base_quality;t_lod CONTQ=93;DP=6545;ECNT=33;MBQ=28,7,0;MFRL=333,355,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.456e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6356,31,0:1.758e-04,1.557e-04:6387:2949,15,0:3407,16,0 MT 9074 . C . . END=9076 GT:DP:MIN_DP:TLOD 0/0:6545:6485:-3.815e+00 -MT 9077 . T G, . base_quality;t_lod CONTQ=93;DP=6374;ECNT=33;MBQ=29,7,0;MFRL=333,291,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.915e-03;SAPP=8.852e-04,1.032e-04,0.999;TLOD=-3.491e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6255,12,0:1.614e-04,1.589e-04:6267:2893,5,0:3362,7,0 -MT 9078 . T C, . base_quality;t_lod CONTQ=93;DP=6326;ECNT=33;MBQ=29,8,0;MFRL=332,435,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.249e-03;SAPP=8.483e-04,1.249e-04,0.999;TLOD=-3.460e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6211,14,0:1.735e-04,1.601e-04:6225:2872,3,0:3339,11,0 -MT 9079 . A G,C, . base_quality;t_lod CONTQ=93;DP=6289;ECNT=33;MBQ=29,15,8,0;MFRL=332,419,397,0;MMQ=60,56,60,0;MPOS=25,37,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.241e-04;SAPP=9.375e-05,1.327e-04,1.000;TLOD=-3.261e+00,-3.295e+00,-3.321e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6168,2,27,0:1.819e-04,1.692e-04,1.592e-04:6197:2840,1,18,0:3328,1,9,0 -MT 9080 . A C,T, . base_quality;t_lod CONTQ=93;DP=6241;ECNT=33;MBQ=28,7,10,0;MFRL=332,371,333,0;MMQ=60,60,59,0;MPOS=30,16,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,7.666e-03;SAPP=7.536e-07,0.989,0.011;TLOD=-2.986e+00,-3.309e+00,-3.311e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6084,47,5,0:3.208e-04,1.635e-04,1.629e-04:6136:2797,24,3,0:3287,23,2,0 -MT 9081 . C A, . t_lod CONTQ=93;DP=6203;ECNT=33;MBQ=28,22,0;MFRL=332,314,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.225e-04;SAPP=9.358e-05,1.318e-04,1.000;TLOD=-3.475e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6200,2,0:1.676e-04,1.612e-04:6202:2860,1,0:3340,1,0 -MT 9082 . C T, . base_quality;t_lod CONTQ=93;DP=6157;ECNT=33;MBQ=28,14,0;MFRL=332,489,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.00,0.010,8.240e-04;SAPP=1.763e-03,5.872e-05,0.998;TLOD=-3.479e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6063,5,0:1.659e-04,1.641e-04:6068:2788,4,0:3275,1,0 +MT 9077 . T G, . base_quality;t_lod CONTQ=93;DP=6374;ECNT=33;MBQ=29,7,0;MFRL=333,291,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.491e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6255,12,0:1.614e-04,1.589e-04:6267:2893,5,0:3362,7,0 +MT 9078 . T C, . base_quality;t_lod CONTQ=93;DP=6326;ECNT=33;MBQ=29,8,0;MFRL=332,435,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.460e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6211,14,0:1.735e-04,1.601e-04:6225:2872,3,0:3339,11,0 +MT 9079 . A G,C, . base_quality;t_lod CONTQ=93;DP=6289;ECNT=33;MBQ=29,15,8,0;MFRL=332,419,397,0;MMQ=60,56,60,0;MPOS=25,37,0;POPAF=7.30,7.30,7.30;TLOD=-3.261e+00,-3.295e+00,-3.321e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6168,2,27,0:1.819e-04,1.692e-04,1.592e-04:6197:2840,1,18,0:3328,1,9,0 +MT 9080 . A C,T, . base_quality;t_lod CONTQ=93;DP=6241;ECNT=33;MBQ=28,7,10,0;MFRL=332,371,333,0;MMQ=60,60,59,0;MPOS=30,16,0;POPAF=7.30,7.30,7.30;TLOD=-2.986e+00,-3.309e+00,-3.311e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6084,47,5,0:3.208e-04,1.635e-04,1.629e-04:6136:2797,24,3,0:3287,23,2,0 +MT 9081 . C A, . t_lod CONTQ=93;DP=6203;ECNT=33;MBQ=28,22,0;MFRL=332,314,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6200,2,0:1.676e-04,1.612e-04:6202:2860,1,0:3340,1,0 +MT 9082 . C T, . base_quality;t_lod CONTQ=93;DP=6157;ECNT=33;MBQ=28,14,0;MFRL=332,489,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.479e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6063,5,0:1.659e-04,1.641e-04:6068:2788,4,0:3275,1,0 MT 9083 . T . . END=9083 GT:DP:MIN_DP:TLOD 0/0:6190:6190:-3.489e+00 -MT 9084 . T G, . base_quality;t_lod CONTQ=93;DP=6075;ECNT=33;MBQ=28,4,0;MFRL=331,315,0;MMQ=60,59,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.521e-03;SAPP=8.196e-05,6.949e-03,0.993;TLOD=-3.463e+00,-3.475e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5936,15,0:1.723e-04,1.674e-04:5951:2732,9,0:3204,6,0 +MT 9084 . T G, . base_quality;t_lod CONTQ=93;DP=6075;ECNT=33;MBQ=28,4,0;MFRL=331,315,0;MMQ=60,59,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.463e+00,-3.475e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5936,15,0:1.723e-04,1.674e-04:5951:2732,9,0:3204,6,0 MT 9085 . C . . END=9090 GT:DP:MIN_DP:TLOD 0/0:5984:5853:-3.775e+00 -MT 9091 . A C, . base_quality;t_lod CONTQ=93;DP=5798;ECNT=33;MBQ=29,8,0;MFRL=331,381,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.579e-03;SAPP=0.219,6.547e-05,0.781;TLOD=-3.347e+00,-3.455e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5652,26,0:2.276e-04,1.754e-04:5678:2610,9,0:3042,17,0 +MT 9091 . A C, . base_quality;t_lod CONTQ=93;DP=5798;ECNT=33;MBQ=29,8,0;MFRL=331,381,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.347e+00,-3.455e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5652,26,0:2.276e-04,1.754e-04:5678:2610,9,0:3042,17,0 MT 9092 . C . . END=9092 GT:DP:MIN_DP:TLOD 0/0:5760:5760:-3.760e+00 -MT 9093 . A C, . base_quality;t_lod CONTQ=93;DP=5713;ECNT=33;MBQ=28,7,0;MFRL=330,403,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.844e-03;SAPP=1.944e-04,4.697e-04,0.999;TLOD=-3.384e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5610,16,0:2.069e-04,1.772e-04:5626:2584,4,0:3026,12,0 +MT 9093 . A C, . base_quality;t_lod CONTQ=93;DP=5713;ECNT=33;MBQ=28,7,0;MFRL=330,403,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.384e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5610,16,0:2.069e-04,1.772e-04:5626:2584,4,0:3026,12,0 MT 9094 . C . . END=9094 GT:DP:MIN_DP:TLOD 0/0:5684:5684:-3.749e+00 -MT 9095 . T C, . base_quality;t_lod CONTQ=93;DP=5640;ECNT=33;MBQ=29,7,0;MFRL=329,409,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.069e-03;SAPP=2.171e-03,1.172e-04,0.998;TLOD=-3.230e+00,-3.444e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5523,17,0:2.843e-04,1.797e-04:5540:2549,4,0:2974,13,0 -MT 9096 . T G, . base_quality;t_lod CONTQ=93;DP=5595;ECNT=33;MBQ=29,8,0;MFRL=330,285,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.456e-03;SAPP=1.060e-04,6.203e-04,0.999;TLOD=-3.438e+00,-3.441e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5487,8,0:1.823e-04,1.813e-04:5495:2523,6,0:2964,2,0 +MT 9095 . T C, . base_quality;t_lod CONTQ=93;DP=5640;ECNT=33;MBQ=29,7,0;MFRL=329,409,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.230e+00,-3.444e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5523,17,0:2.843e-04,1.797e-04:5540:2549,4,0:2974,13,0 +MT 9096 . T G, . base_quality;t_lod CONTQ=93;DP=5595;ECNT=33;MBQ=29,8,0;MFRL=330,285,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.438e+00,-3.441e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5487,8,0:1.823e-04,1.813e-04:5495:2523,6,0:2964,2,0 MT 9097 . A . . END=9097 GT:DP:MIN_DP:TLOD 0/0:5562:5562:-3.490e+00 -MT 9098 . T G, . base_quality;t_lod CONTQ=93;DP=5510;ECNT=33;MBQ=28,7,0;MFRL=329,435,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.217e-03;SAPP=4.998e-04,1.685e-04,0.999;TLOD=-3.418e+00,-3.434e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5400,12,0:1.910e-04,1.840e-04:5412:2484,3,0:2916,9,0 +MT 9098 . T G, . base_quality;t_lod CONTQ=93;DP=5510;ECNT=33;MBQ=28,7,0;MFRL=329,435,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.418e+00,-3.434e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5400,12,0:1.910e-04,1.840e-04:5412:2484,3,0:2916,9,0 MT 9099 . C . . END=9100 GT:DP:MIN_DP:TLOD 0/0:5454:5433:-3.722e+00 -MT 9101 . T G, . base_quality;t_lod CONTQ=93;DP=5388;ECNT=33;MBQ=28,8,0;MFRL=329,413,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.702e-03;SAPP=3.036e-03,8.323e-05,0.997;TLOD=-3.363e+00,-3.424e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5279,9,0:2.172e-04,1.883e-04:5288:2421,6,0:2858,3,0 -MT 9102 . C T, . base_quality;t_lod CONTQ=93;DP=5346;ECNT=33;MBQ=28,10,0;MFRL=330,232,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.900e-04;SAPP=5.364e-05,2.157e-04,1.000;TLOD=-3.422e+00,-3.423e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5263,1,0:1.891e-04,1.889e-04:5264:2410,0,0:2853,1,0 +MT 9101 . T G, . base_quality;t_lod CONTQ=93;DP=5388;ECNT=33;MBQ=28,8,0;MFRL=329,413,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.363e+00,-3.424e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5279,9,0:2.172e-04,1.883e-04:5288:2421,6,0:2858,3,0 +MT 9102 . C T, . base_quality;t_lod CONTQ=93;DP=5346;ECNT=33;MBQ=28,10,0;MFRL=330,232,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-3.422e+00,-3.423e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5263,1,0:1.891e-04,1.889e-04:5264:2410,0,0:2853,1,0 MT 9103 . T . . END=9103 GT:DP:MIN_DP:TLOD 0/0:5303:5303:-3.712e+00 -MT 9104 . T A, . base_quality;t_lod CONTQ=93;DP=5357;ECNT=33;MBQ=28,11,0;MFRL=330,339,0;MMQ=60,57,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.798e-04;SAPP=8.540e-05,2.810e-04,1.000;TLOD=-3.417e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5171,3,0:1.914e-04,1.909e-04:5174:2363,3,0:2808,0,0 +MT 9104 . T A, . base_quality;t_lod CONTQ=93;DP=5357;ECNT=33;MBQ=28,11,0;MFRL=330,339,0;MMQ=60,57,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.417e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5171,3,0:1.914e-04,1.909e-04:5174:2363,3,0:2808,0,0 MT 9105 . C . . END=9105 GT:DP:MIN_DP:TLOD 0/0:5276:5276:-3.719e+00 -MT 9106 . A T, . base_quality;t_lod CONTQ=93;DP=5360;ECNT=33;MBQ=29,14,0;MFRL=329,421,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.667e-04;SAPP=1.137e-04,3.454e-04,1.000;TLOD=-3.417e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5167,5,0:1.916e-04,1.908e-04:5172:2363,1,0:2804,4,0 +MT 9106 . A T, . base_quality;t_lod CONTQ=93;DP=5360;ECNT=33;MBQ=29,14,0;MFRL=329,421,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.417e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5167,5,0:1.916e-04,1.908e-04:5172:2363,1,0:2804,4,0 MT 9107 . C . . END=9110 GT:DP:MIN_DP:TLOD 0/0:5263:5249:-3.719e+00 -MT 9111 . T C, . base_quality;t_lod CONTQ=93;DP=5360;ECNT=33;MBQ=28,8,0;MFRL=329,410,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.896e-03;SAPP=0.039,6.450e-05,0.960;TLOD=-3.420e+00,-3.424e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5265,10,0:1.900e-04,1.885e-04:5275:2393,5,0:2872,5,0 +MT 9111 . T C, . base_quality;t_lod CONTQ=93;DP=5360;ECNT=33;MBQ=28,8,0;MFRL=329,410,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.420e+00,-3.424e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5265,10,0:1.900e-04,1.885e-04:5275:2393,5,0:2872,5,0 MT 9112 . C . . END=9113 GT:DP:MIN_DP:TLOD 0/0:5829:5826:-3.759e+00 MT 9114 . A . . END=9115 GT:DP:MIN_DP:TLOD 0/0:5807:5790:-3.484e+00 MT 9116 . T . . END=9127 GT:DP:MIN_DP:TLOD 0/0:5792:5766:-3.753e+00 @@ -3816,49 +3814,49 @@ MT 9494 . A . . END=9494 GT:DP:MIN_DP:TLOD 0/0:5646:5646:-3.300e+00 MT 9495 . T . . END=9495 GT:DP:MIN_DP:TLOD 0/0:5709:5709:-3.678e+00 MT 9496 . T . . END=9496 GT:DP:MIN_DP:TLOD 0/0:5766:5766:-3.340e+00 MT 9497 . T . . END=9502 GT:DP:MIN_DP:TLOD 0/0:5938:5826:-3.761e+00 -MT 9503 . A C, . base_quality;t_lod CONTQ=93;DP=5352;ECNT=20;MBQ=28,4,0;MFRL=336,371,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.132e-03;SAPP=8.012e-05,0.120,0.880;TLOD=-3.320e+00,-3.421e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5234,27,0:2.421e-04,1.896e-04:5261:2506,17,0:2728,10,0 -MT 9504 . G T, . base_quality;t_lod CONTQ=93;DP=5391;ECNT=20;MBQ=28,12,0;MFRL=337,444,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.131e-03;SAPP=3.470e-04,1.296e-04,1.000;TLOD=-3.424e+00,-3.426e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5300,6,0:1.886e-04,1.876e-04:5306:2543,2,0:2757,4,0 +MT 9503 . A C, . base_quality;t_lod CONTQ=93;DP=5352;ECNT=20;MBQ=28,4,0;MFRL=336,371,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.320e+00,-3.421e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5234,27,0:2.421e-04,1.896e-04:5261:2506,17,0:2728,10,0 +MT 9504 . G T, . base_quality;t_lod CONTQ=93;DP=5391;ECNT=20;MBQ=28,12,0;MFRL=337,444,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.424e+00,-3.426e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5300,6,0:1.886e-04,1.876e-04:5306:2543,2,0:2757,4,0 MT 9505 . C . . END=9505 GT:DP:MIN_DP:TLOD 0/0:5402:5402:-3.731e+00 -MT 9506 . C A, . base_quality;t_lod CONTQ=93;DP=5469;ECNT=20;MBQ=28,11,0;MFRL=338,327,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.713e-04;SAPP=5.559e-05,4.923e-04,0.999;TLOD=-3.432e+00,-3.432e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5384,2,0:1.850e-04,1.847e-04:5386:2579,0,0:2805,2,0 +MT 9506 . C A, . base_quality;t_lod CONTQ=93;DP=5469;ECNT=20;MBQ=28,11,0;MFRL=338,327,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.432e+00,-3.432e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5384,2,0:1.850e-04,1.847e-04:5386:2579,0,0:2805,2,0 MT 9507 . T . . END=9509 GT:DP:MIN_DP:TLOD 0/0:5521:5488:-3.675e+00 MT 9510 . T . . END=9510 GT:DP:MIN_DP:TLOD 0/0:5586:5586:-3.464e+00 MT 9511 . A . . END=9513 GT:DP:MIN_DP:TLOD 0/0:5678:5626:-3.752e+00 -MT 9514 . A C, . base_quality;t_lod CONTQ=93;DP=5773;ECNT=20;MBQ=28,8,0;MFRL=339,322,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.019;SAPP=0.00,1.00,1.922e-20;TLOD=-1.487e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5571,108,0:1.568e-03,1.776e-04:5679:2661,60,0:2910,48,0 -MT 9515 . C A, . t_lod CONTQ=93;DP=5812;ECNT=20;MBQ=28,20,0;MFRL=339,480,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.441e-04;SAPP=1.063e-04,1.259e-04,1.000;TLOD=-2.676e+00,-3.463e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5810,2,0:3.247e-04,1.720e-04:5812:2787,2,0:3023,0,0:0|1:9515_C_A:9515 +MT 9514 . A C, . base_quality;t_lod CONTQ=93;DP=5773;ECNT=20;MBQ=28,8,0;MFRL=339,322,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-1.487e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5571,108,0:1.568e-03,1.776e-04:5679:2661,60,0:2910,48,0 +MT 9515 . C A, . t_lod CONTQ=93;DP=5812;ECNT=20;MBQ=28,20,0;MFRL=339,480,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-2.676e+00,-3.463e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5810,2,0:3.247e-04,1.720e-04:5812:2787,2,0:3023,0,0:0|1:9515_C_A:9515 MT 9516 . T . . END=9520 GT:DP:MIN_DP:TLOD 0/0:5965:5829:-3.733e+00 -MT 9521 . C A, . base_quality;t_lod CONTQ=93;DP=6058;ECNT=20;MBQ=28,12,0;MFRL=339,416,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.005e-03;SAPP=9.685e-05,4.280e-04,0.999;TLOD=-3.460e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5962,6,0:1.735e-04,1.667e-04:5968:2855,2,0:3107,4,0 +MT 9521 . C A, . base_quality;t_lod CONTQ=93;DP=6058;ECNT=20;MBQ=28,12,0;MFRL=339,416,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.460e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5962,6,0:1.735e-04,1.667e-04:5968:2855,2,0:3107,4,0 MT 9522 . C . . END=9524 GT:DP:MIN_DP:TLOD 0/0:6140:6097:-3.783e+00 -MT 9525 . G T, . base_quality;t_lod CONTQ=93;DP=6217;ECNT=20;MBQ=28,12,0;MFRL=339,414,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.961e-03;SAPP=1.225e-03,9.691e-05,0.999;TLOD=-3.483e+00,-3.487e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6106,12,0:1.645e-04,1.631e-04:6118:2905,6,0:3201,6,0 +MT 9525 . G T, . base_quality;t_lod CONTQ=93;DP=6217;ECNT=20;MBQ=28,12,0;MFRL=339,414,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.483e+00,-3.487e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6106,12,0:1.645e-04,1.631e-04:6118:2905,6,0:3201,6,0 MT 9526 . C . . END=9529 GT:DP:MIN_DP:TLOD 0/0:6350:6280:-3.797e+00 -MT 9530 . T A, . base_quality;t_lod CONTQ=93;DP=6435;ECNT=20;MBQ=28,18,0;MFRL=339,480,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.156e-04;SAPP=9.885e-05,1.190e-04,1.000;TLOD=-2.748e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6336,2,0:2.955e-04,1.569e-04:6338:2992,2,0:3344,0,0:0|1:9515_C_A:9515 -MT 9531 . AC A, . t_lod CONTQ=93;DP=6476;ECNT=20;MBQ=28,28,0;MFRL=339,258,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.661e-04;SAPP=4.910e-05,1.682e-04,1.000;TLOD=-3.428e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6020,1,0:1.861e-04,1.610e-04:6021:2838,0,0:3182,1,0 +MT 9530 . T A, . base_quality;t_lod CONTQ=93;DP=6435;ECNT=20;MBQ=28,18,0;MFRL=339,480,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-2.748e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6336,2,0:2.955e-04,1.569e-04:6338:2992,2,0:3344,0,0:0|1:9515_C_A:9515 +MT 9531 . AC A, . t_lod CONTQ=93;DP=6476;ECNT=20;MBQ=28,28,0;MFRL=339,258,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.428e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6020,1,0:1.861e-04,1.610e-04:6021:2838,0,0:3182,1,0 MT 9533 . C . . END=9534 GT:DP:MIN_DP:TLOD 0/0:6372:6362:-3.796e+00 -MT 9535 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6432;ECNT=20;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.771e-05,5.392e-05,1.000;TLOD=-3.499e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6225,0,0:1.586e-04,1.586e-04:6225:2943,0,0:3282,0,0 +MT 9535 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6432;ECNT=20;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.499e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6225,0,0:1.586e-04,1.586e-04:6225:2943,0,0:3282,0,0 MT 9536 . C . . END=9536 GT:DP:MIN_DP:TLOD 0/0:6349:6349:-3.797e+00 -MT 9537 . C A, . base_quality;t_lod CONTQ=93;DP=6440;ECNT=20;MBQ=28,14,0;MFRL=339,283,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.602e-03;SAPP=5.665e-04,1.032e-04,0.999;TLOD=-3.471e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6233,10,0:1.689e-04,1.585e-04:6243:2938,7,0:3295,3,0 +MT 9537 . C A, . base_quality;t_lod CONTQ=93;DP=6440;ECNT=20;MBQ=28,14,0;MFRL=339,283,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.471e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6233,10,0:1.689e-04,1.585e-04:6243:2938,7,0:3295,3,0 MT 9538 . A . . END=9539 GT:DP:MIN_DP:TLOD 0/0:6257:6250:-3.705e+00 -MT 9540 . T C, . PASS CONTQ=93;DP=6404;ECNT=20;MBQ=26,28,0;MFRL=336,339,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.017,0.033,0.950;TLOD=19328.71,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:24,6216,0:0.997,1.590e-04:6240:15,2914,0:9,3302,0 +MT 9540 . T C, . PASS CONTQ=93;DP=6404;ECNT=20;MBQ=26,28,0;MFRL=336,339,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=19328.71,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:24,6216,0:0.997,1.590e-04:6240:15,2914,0:9,3302,0 MT 9541 . T . . END=9541 GT:DP:MIN_DP:TLOD 0/0:6227:6227:-3.472e+00 MT 9542 . A . . END=9543 GT:DP:MIN_DP:TLOD 0/0:6185:6170:-3.763e+00 -MT 9544 . G T, . base_quality;t_lod CONTQ=93;DP=6374;ECNT=20;MBQ=28,12,0;MFRL=340,369,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.941e-03;SAPP=3.876e-03,7.606e-05,0.996;TLOD=-3.475e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6171,12,0:1.677e-04,1.606e-04:6183:2898,9,0:3273,3,0 +MT 9544 . G T, . base_quality;t_lod CONTQ=93;DP=6374;ECNT=20;MBQ=28,12,0;MFRL=340,369,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6171,12,0:1.677e-04,1.606e-04:6183:2898,9,0:3273,3,0 MT 9545 . A . . END=9546 GT:DP:MIN_DP:TLOD 0/0:6183:6180:-3.773e+00 -MT 9547 . G T, . base_quality;t_lod CONTQ=93;DP=6269;ECNT=20;MBQ=28,13,0;MFRL=340,411,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.297e-03;SAPP=7.531e-04,8.980e-05,0.999;TLOD=-3.486e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6158,8,0:1.634e-04,1.618e-04:6166:2891,2,0:3267,6,0 -MT 9548 . G T, . base_quality;t_lod CONTQ=93;DP=6231;ECNT=20;MBQ=28,11,0;MFRL=340,300,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.793e-04;SAPP=3.043e-04,1.111e-04,1.000;TLOD=-3.470e+00,-3.487e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6121,6,0:1.694e-04,1.629e-04:6127:2878,1,0:3243,5,0 +MT 9547 . G T, . base_quality;t_lod CONTQ=93;DP=6269;ECNT=20;MBQ=28,13,0;MFRL=340,411,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.486e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6158,8,0:1.634e-04,1.618e-04:6166:2891,2,0:3267,6,0 +MT 9548 . G T, . base_quality;t_lod CONTQ=93;DP=6231;ECNT=20;MBQ=28,11,0;MFRL=340,300,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.470e+00,-3.487e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6121,6,0:1.694e-04,1.629e-04:6127:2878,1,0:3243,5,0 MT 9549 . C . . END=9553 GT:DP:MIN_DP:TLOD 0/0:6038:5956:-3.785e+00 MT 9554 . G . . END=9554 GT:DP:MIN_DP:TLOD 0/0:5886:5886:-3.485e+00 MT 9555 . C . . END=9555 GT:DP:MIN_DP:TLOD 0/0:5940:5940:-3.757e+00 MT 9556 . C . . END=9556 GT:DP:MIN_DP:TLOD 0/0:5903:5903:-3.181e+00 -MT 9557 . C A, . base_quality;t_lod CONTQ=93;DP=5868;ECNT=20;MBQ=28,15,0;MFRL=341,280,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.193e-04;SAPP=1.786e-04,9.503e-05,1.000;TLOD=-3.410e+00,-3.463e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5774,3,0:1.939e-04,1.723e-04:5777:2702,2,0:3072,1,0 -MT 9558 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5830;ECNT=20;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=5.148e-05,5.697e-05,1.000;TLOD=-3.465e+00,-3.465e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5826,0,0:1.716e-04,1.716e-04:5826:2731,0,0:3095,0,0 +MT 9557 . C A, . base_quality;t_lod CONTQ=93;DP=5868;ECNT=20;MBQ=28,15,0;MFRL=341,280,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.410e+00,-3.463e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5774,3,0:1.939e-04,1.723e-04:5777:2702,2,0:3072,1,0 +MT 9558 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5830;ECNT=20;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.465e+00,-3.465e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5826,0,0:1.716e-04,1.716e-04:5826:2731,0,0:3095,0,0 MT 9559 . C . . END=9559 GT:DP:MIN_DP:TLOD 0/0:5814:5814:-3.675e+00 MT 9560 . A . . END=9560 GT:DP:MIN_DP:TLOD 0/0:5762:5762:-3.376e+00 MT 9561 . A . . END=9563 GT:DP:MIN_DP:TLOD 0/0:5683:5614:-3.747e+00 -MT 9564 . G T, . base_quality;t_lod CONTQ=93;DP=5587;ECNT=20;MBQ=28,12,0;MFRL=340,410,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.095e-03;SAPP=9.671e-04,8.293e-05,0.999;TLOD=-3.437e+00,-3.439e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5471,6,0:1.829e-04,1.819e-04:5477:2540,3,0:2931,3,0 +MT 9564 . G T, . base_quality;t_lod CONTQ=93;DP=5587;ECNT=20;MBQ=28,12,0;MFRL=340,410,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.437e+00,-3.439e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5471,6,0:1.829e-04,1.819e-04:5477:2540,3,0:2931,3,0 MT 9565 . G . . END=9567 GT:DP:MIN_DP:TLOD 0/0:5502:5444:-3.716e+00 MT 9568 . T . . END=9568 GT:DP:MIN_DP:TLOD 0/0:5405:5405:-3.319e+00 MT 9569 . C . . END=9570 GT:DP:MIN_DP:TLOD 0/0:5341:5310:-3.719e+00 -MT 9571 . C A, . base_quality;t_lod CONTQ=93;DP=5299;ECNT=20;MBQ=28,13,0;MFRL=340,296,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.591e-04;SAPP=7.881e-05,8.751e-04,0.999;TLOD=-3.399e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5208,5,0:1.995e-04,1.908e-04:5213:2414,4,0:2794,1,0 -MT 9572 . C A, . base_quality;t_lod CONTQ=93;DP=5255;ECNT=20;MBQ=29,18,0;MFRL=341,320,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.158e-03;SAPP=1.765e-04,2.352e-04,1.000;TLOD=-3.227e+00,-3.415e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5174,6,0:2.918e-04,1.922e-04:5180:2405,1,0:2769,5,0 +MT 9571 . C A, . base_quality;t_lod CONTQ=93;DP=5299;ECNT=20;MBQ=28,13,0;MFRL=340,296,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.399e+00,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5208,5,0:1.995e-04,1.908e-04:5213:2414,4,0:2794,1,0 +MT 9572 . C A, . base_quality;t_lod CONTQ=93;DP=5255;ECNT=20;MBQ=29,18,0;MFRL=341,320,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.227e+00,-3.415e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5174,6,0:2.918e-04,1.922e-04:5180:2405,1,0:2769,5,0 MT 9573 . C . . END=9574 GT:DP:MIN_DP:TLOD 0/0:5942:5889:-3.725e+00 MT 9575 . G . . END=9575 GT:DP:MIN_DP:TLOD 0/0:5457:5457:-3.349e+00 MT 9576 . C . . END=9583 GT:DP:MIN_DP:TLOD 0/0:5603:5512:-3.688e+00 @@ -4141,37 +4139,37 @@ MT 10353 . G . . END=10354 GT:DP:MIN_DP:TLOD 0/0:7104:7071:-3.695e+00 MT 10355 . C . . END=10355 GT:DP:MIN_DP:TLOD 0/0:7160:7160:-3.360e+00 MT 10356 . C . . END=10359 GT:DP:MIN_DP:TLOD 0/0:7145:7111:-3.834e+00 MT 10360 . G . . END=10361 GT:DP:MIN_DP:TLOD 0/0:7074:7032:-3.459e+00 -MT 10362 . C A, . base_quality;t_lod CONTQ=93;DP=6566;ECNT=19;MBQ=28,13,0;MFRL=341,330,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.096e-03;SAPP=1.022e-04,4.275e-04,0.999;TLOD=-3.123e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6379,7,0:3.276e-04,1.552e-04:6386:3211,3,0:3168,4,0 +MT 10362 . C A, . base_quality;t_lod CONTQ=93;DP=6566;ECNT=19;MBQ=28,13,0;MFRL=341,330,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.123e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6379,7,0:3.276e-04,1.552e-04:6386:3211,3,0:3168,4,0 MT 10363 . T . . END=10366 GT:DP:MIN_DP:TLOD 0/0:6522:6488:-3.813e+00 -MT 10367 . C A, . base_quality;t_lod CONTQ=93;DP=6551;ECNT=19;MBQ=28,12,0;MFRL=341,336,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.881e-03;SAPP=6.183e-05,0.015,0.985;TLOD=-3.242e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6366,12,0:2.658e-04,1.555e-04:6378:3201,8,0:3165,4,0 +MT 10367 . C A, . base_quality;t_lod CONTQ=93;DP=6551;ECNT=19;MBQ=28,12,0;MFRL=341,336,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.242e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6366,12,0:2.658e-04,1.555e-04:6378:3201,8,0:3165,4,0 MT 10368 . T . . END=10370 GT:DP:MIN_DP:TLOD 0/0:6543:6542:-3.813e+00 -MT 10371 . G T, . base_quality;t_lod CONTQ=93;DP=6574;ECNT=19;MBQ=28,11,0;MFRL=341,446,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.871e-03;SAPP=4.362e-04,1.225e-04,0.999;TLOD=-3.422e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6401,12,0:1.882e-04,1.548e-04:6413:3235,4,0:3166,8,0 +MT 10371 . G T, . base_quality;t_lod CONTQ=93;DP=6574;ECNT=19;MBQ=28,11,0;MFRL=341,446,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.422e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6401,12,0:1.882e-04,1.548e-04:6413:3235,4,0:3166,8,0 MT 10372 . A . . END=10379 GT:DP:MIN_DP:TLOD 0/0:6533:6492:-3.797e+00 -MT 10380 . C A, . base_quality;t_lod CONTQ=93;DP=6589;ECNT=19;MBQ=28,12,0;MFRL=341,326,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.868e-03;SAPP=4.450e-05,0.150,0.849;TLOD=-3.461e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6411,12,0:1.732e-04,1.545e-04:6423:3209,7,0:3202,5,0 +MT 10380 . C A, . base_quality;t_lod CONTQ=93;DP=6589;ECNT=19;MBQ=28,12,0;MFRL=341,326,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.461e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6411,12,0:1.732e-04,1.545e-04:6423:3209,7,0:3202,5,0 MT 10381 . A . . END=10383 GT:DP:MIN_DP:TLOD 0/0:6579:6572:-3.756e+00 -MT 10384 . A C, . base_quality;t_lod CONTQ=93;DP=6623;ECNT=19;MBQ=29,8,0;MFRL=341,381,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.416e-03;SAPP=1.244e-04,1.289e-03,0.999;TLOD=-3.227e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,22,0:2.975e-04,1.540e-04:6441:3206,7,0:3213,15,0 +MT 10384 . A C, . base_quality;t_lod CONTQ=93;DP=6623;ECNT=19;MBQ=29,8,0;MFRL=341,381,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.227e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,22,0:2.975e-04,1.540e-04:6441:3206,7,0:3213,15,0 MT 10385 . A . . END=10385 GT:DP:MIN_DP:TLOD 0/0:6573:6573:-3.692e+00 -MT 10386 . G T, . base_quality;t_lod CONTQ=93;DP=6631;ECNT=19;MBQ=28,13,0;MFRL=341,410,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.395e-03;SAPP=8.281e-05,9.606e-04,0.999;TLOD=-3.406e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6442,9,0:1.967e-04,1.537e-04:6451:3221,5,0:3221,4,0 -MT 10387 . G T, . base_quality;t_lod CONTQ=93;DP=6639;ECNT=19;MBQ=28,11,0;MFRL=341,350,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.016e-03;SAPP=2.209e-04,2.220e-04,1.000;TLOD=-3.431e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6435,13,0:1.850e-04,1.537e-04:6448:3210,6,0:3225,7,0 +MT 10386 . G T, . base_quality;t_lod CONTQ=93;DP=6631;ECNT=19;MBQ=28,13,0;MFRL=341,410,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.406e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6442,9,0:1.967e-04,1.537e-04:6451:3221,5,0:3221,4,0 +MT 10387 . G T, . base_quality;t_lod CONTQ=93;DP=6639;ECNT=19;MBQ=28,11,0;MFRL=341,350,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.431e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6435,13,0:1.850e-04,1.537e-04:6448:3210,6,0:3225,7,0 MT 10388 . A . . END=10397 GT:DP:MIN_DP:TLOD 0/0:6573:6531:-3.811e+00 -MT 10398 . A G, . PASS CONTQ=93;DP=6663;ECNT=19;MBQ=28,28,0;MFRL=352,341,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.022,0.024,0.955;TLOD=20309.55,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:25,6442,0:0.997,1.533e-04:6467:10,3208,0:15,3234,0 -MT 10399 . C A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=19;MBQ=28,12,0;MFRL=341,395,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.542e-03;SAPP=6.153e-05,6.022e-03,0.994;TLOD=-3.511e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6477,10,0:1.541e-04,1.530e-04:6487:3232,2,0:3245,8,0 -MT 10400 . C A, . base_quality;t_lod CONTQ=93;DP=6657;ECNT=19;MBQ=24,13,0;MFRL=342,421,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.007e-03;SAPP=5.868e-05,0.030,0.970;TLOD=-3.449e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6463,13,0:1.774e-04,1.537e-04:6476:3223,11,0:3240,2,0 +MT 10398 . A G, . PASS CONTQ=93;DP=6663;ECNT=19;MBQ=28,28,0;MFRL=352,341,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20309.55,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:25,6442,0:0.997,1.533e-04:6467:10,3208,0:15,3234,0 +MT 10399 . C A, . base_quality;t_lod CONTQ=93;DP=6661;ECNT=19;MBQ=28,12,0;MFRL=341,395,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6477,10,0:1.541e-04,1.530e-04:6487:3232,2,0:3245,8,0 +MT 10400 . C A, . base_quality;t_lod CONTQ=93;DP=6657;ECNT=19;MBQ=24,13,0;MFRL=342,421,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.449e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6463,13,0:1.774e-04,1.537e-04:6476:3223,11,0:3240,2,0 MT 10401 . G . . END=10405 GT:DP:MIN_DP:TLOD 0/0:6540:6458:-3.806e+00 -MT 10406 . G A, . base_quality;t_lod CONTQ=93;DP=6663;ECNT=19;MBQ=28,14,0;MFRL=341,394,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.782e-03;SAPP=3.377e-05,0.408,0.592;TLOD=-3.497e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6452,18,0:1.592e-04,1.534e-04:6470:3227,11,0:3225,7,0 +MT 10406 . G A, . base_quality;t_lod CONTQ=93;DP=6663;ECNT=19;MBQ=28,14,0;MFRL=341,394,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6452,18,0:1.592e-04,1.534e-04:6470:3227,11,0:3225,7,0 MT 10407 . G . . END=10413 GT:DP:MIN_DP:TLOD 0/0:6561:6487:-3.814e+00 -MT 10414 . G T, . base_quality;t_lod CONTQ=93;DP=6637;ECNT=19;MBQ=28,11,0;MFRL=341,358,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.632e-03;SAPP=1.392e-04,7.651e-04,0.999;TLOD=-3.402e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6442,17,0:1.976e-04,1.537e-04:6459:3241,10,0:3201,7,0 +MT 10414 . G T, . base_quality;t_lod CONTQ=93;DP=6637;ECNT=19;MBQ=28,11,0;MFRL=341,358,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.402e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6442,17,0:1.976e-04,1.537e-04:6459:3241,10,0:3201,7,0 MT 10415 . T . . END=10416 GT:DP:MIN_DP:TLOD 0/0:6549:6544:-3.746e+00 -MT 10417 . T TCAAC, . t_lod CONTQ=93;DP=6620;ECNT=19;MBQ=29,25,0;MFRL=341,358,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.558e-04;SAPP=1.475e-04,4.739e-05,1.000;TLOD=-3.512e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,1,0:1.537e-04,1.536e-04:6420:3211,0,0:3208,1,0 +MT 10417 . T TCAAC, . t_lod CONTQ=93;DP=6620;ECNT=19;MBQ=29,25,0;MFRL=341,358,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.512e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6419,1,0:1.537e-04,1.536e-04:6420:3211,0,0:3208,1,0 MT 10418 . A . . END=10419 GT:DP:MIN_DP:TLOD 0/0:6552:6551:-3.775e+00 -MT 10420 . A C, . base_quality;t_lod CONTQ=93;DP=6612;ECNT=19;MBQ=29,10,0;MFRL=341,297,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.512e-04;SAPP=4.901e-05,1.280e-04,1.000;TLOD=-3.517e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6611,1,0:1.522e-04,1.512e-04:6612:3309,1,0:3302,0,0 -MT 10421 . C A, . base_quality;t_lod CONTQ=93;DP=6619;ECNT=19;MBQ=28,14,0;MFRL=341,362,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.244e-03;SAPP=1.011e-03,7.825e-05,0.999;TLOD=-3.460e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,8,0:1.736e-04,1.539e-04:6433:3212,3,0:3213,5,0 +MT 10420 . A C, . base_quality;t_lod CONTQ=93;DP=6612;ECNT=19;MBQ=29,10,0;MFRL=341,297,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6611,1,0:1.522e-04,1.512e-04:6612:3309,1,0:3302,0,0 +MT 10421 . C A, . base_quality;t_lod CONTQ=93;DP=6619;ECNT=19;MBQ=28,14,0;MFRL=341,362,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.460e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6425,8,0:1.736e-04,1.539e-04:6433:3212,3,0:3213,5,0 MT 10422 . A . . END=10429 GT:DP:MIN_DP:TLOD 0/0:6518:6447:-3.810e+00 -MT 10430 . T G, . base_quality;t_lod CONTQ=93;DP=6570;ECNT=19;MBQ=29,9,0;MFRL=340,307,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.405e-03;SAPP=6.085e-03,5.864e-05,0.994;TLOD=-3.447e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6395,9,0:1.779e-04,1.548e-04:6404:3189,4,0:3206,5,0 -MT 10431 . G T, . base_quality;t_lod CONTQ=93;DP=6574;ECNT=19;MBQ=28,11,0;MFRL=340,362,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.187e-03;SAPP=9.925e-05,1.469e-03,0.998;TLOD=-3.503e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6387,14,0:1.569e-04,1.550e-04:6401:3187,8,0:3200,6,0 -MT 10432 . A C, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=19;MBQ=28,9,0;MFRL=340,324,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.031e-03;SAPP=8.195e-05,2.551e-03,0.997;TLOD=-3.494e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6387,13,0:1.603e-04,1.549e-04:6400:3182,6,0:3205,7,0 +MT 10430 . T G, . base_quality;t_lod CONTQ=93;DP=6570;ECNT=19;MBQ=29,9,0;MFRL=340,307,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.447e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6395,9,0:1.779e-04,1.548e-04:6404:3189,4,0:3206,5,0 +MT 10431 . G T, . base_quality;t_lod CONTQ=93;DP=6574;ECNT=19;MBQ=28,11,0;MFRL=340,362,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.503e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6387,14,0:1.569e-04,1.550e-04:6401:3187,8,0:3200,6,0 +MT 10432 . A C, . base_quality;t_lod CONTQ=93;DP=6575;ECNT=19;MBQ=28,9,0;MFRL=340,324,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6387,13,0:1.603e-04,1.549e-04:6400:3182,6,0:3205,7,0 MT 10433 . T . . END=10433 GT:DP:MIN_DP:TLOD 0/0:6477:6477:-3.757e+00 -MT 10434 . T A, . base_quality;t_lod CONTQ=93;DP=6571;ECNT=19;MBQ=28,17,0;MFRL=339,555,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.131e-04;SAPP=1.077e-04,1.072e-04,1.000;TLOD=-3.494e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,2,0:1.603e-04,1.549e-04:6388:3172,2,0:3214,0,0 +MT 10434 . T A, . base_quality;t_lod CONTQ=93;DP=6571;ECNT=19;MBQ=28,17,0;MFRL=339,555,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6386,2,0:1.603e-04,1.549e-04:6388:3172,2,0:3214,0,0 MT 10435 . T . . END=10436 GT:DP:MIN_DP:TLOD 0/0:7050:6980:-3.759e+00 MT 10437 . G . . END=10437 GT:DP:MIN_DP:TLOD 0/0:7002:7002:-3.475e+00 MT 10438 . A . . END=10440 GT:DP:MIN_DP:TLOD 0/0:7105:7058:-3.784e+00 @@ -4281,54 +4279,54 @@ MT 10775 . G . . END=10776 GT:DP:MIN_DP:TLOD 0/0:6968:6861:-3.140e+00 MT 10777 . C . . END=10778 GT:DP:MIN_DP:TLOD 0/0:7162:7148:-3.754e+00 MT 10779 . C . . END=10779 GT:DP:MIN_DP:TLOD 0/0:7154:7154:-3.042e+00 MT 10780 . A . . END=10789 GT:DP:MIN_DP:TLOD 0/0:7175:7151:-3.841e+00 -MT 10790 . T A, . base_quality;t_lod CONTQ=93;DP=6314;ECNT=33;MBQ=29,12,0;MFRL=335,368,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.742e-04;SAPP=8.764e-05,5.454e-04,0.999;TLOD=-3.467e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6153,6,0:1.709e-04,1.610e-04:6159:3238,5,0:2915,1,0 +MT 10790 . T A, . base_quality;t_lod CONTQ=93;DP=6314;ECNT=33;MBQ=29,12,0;MFRL=335,368,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.467e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6153,6,0:1.709e-04,1.610e-04:6159:3238,5,0:2915,1,0 MT 10791 . T . . END=10805 GT:DP:MIN_DP:TLOD 0/0:6196:6101:-3.795e+00 -MT 10806 . G T, . base_quality;t_lod CONTQ=93;DP=6112;ECNT=33;MBQ=28,11,0;MFRL=336,349,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.005e-03;SAPP=9.008e-05,5.733e-04,0.999;TLOD=-3.467e+00,-3.478e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5962,6,0:1.708e-04,1.664e-04:5968:3124,2,0:2838,4,0 +MT 10806 . G T, . base_quality;t_lod CONTQ=93;DP=6112;ECNT=33;MBQ=28,11,0;MFRL=336,349,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.467e+00,-3.478e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5962,6,0:1.708e-04,1.664e-04:5968:3124,2,0:2838,4,0 MT 10807 . A . . END=10812 GT:DP:MIN_DP:TLOD 0/0:6023:5994:-3.774e+00 -MT 10813 . C A, . base_quality;t_lod CONTQ=93;DP=5949;ECNT=33;MBQ=29,17,0;MFRL=337,349,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.372e-03;SAPP=3.301e-04,1.372e-04,1.000;TLOD=-3.286e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5825,8,0:2.550e-04,1.704e-04:5833:3033,5,0:2792,3,0 +MT 10813 . C A, . base_quality;t_lod CONTQ=93;DP=5949;ECNT=33;MBQ=29,17,0;MFRL=337,349,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.286e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5825,8,0:2.550e-04,1.704e-04:5833:3033,5,0:2792,3,0 MT 10814 . A . . END=10818 GT:DP:MIN_DP:TLOD 0/0:5921:5859:-3.768e+00 -MT 10819 . A G, . PASS CONTQ=93;DP=5826;ECNT=33;MBQ=28,29,0;MFRL=293,337,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.018,0.035,0.947;TLOD=18243.78,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:24,5668,0:0.997,1.745e-04:5692:10,2921,0:14,2747,0 +MT 10819 . A G, . PASS CONTQ=93;DP=5826;ECNT=33;MBQ=28,29,0;MFRL=293,337,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=18243.78,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:24,5668,0:0.997,1.745e-04:5692:10,2921,0:14,2747,0 MT 10820 . C . . END=10833 GT:DP:MIN_DP:TLOD 0/0:5587:5428:-3.749e+00 -MT 10834 . C A, . base_quality;t_lod CONTQ=93;DP=5427;ECNT=33;MBQ=28,10,0;MFRL=337,315,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.886e-03;SAPP=0.014,6.573e-05,0.986;TLOD=-3.331e+00,-3.427e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5291,10,0:2.302e-04,1.872e-04:5301:2689,4,0:2602,6,0 +MT 10834 . C A, . base_quality;t_lod CONTQ=93;DP=5427;ECNT=33;MBQ=28,10,0;MFRL=337,315,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.331e+00,-3.427e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5291,10,0:2.302e-04,1.872e-04:5301:2689,4,0:2602,6,0 MT 10835 . A . . END=10840 GT:DP:MIN_DP:TLOD 0/0:5308:5234:-3.715e+00 -MT 10841 . A C, . base_quality;t_lod CONTQ=93;DP=5219;ECNT=33;MBQ=28,5,0;MFRL=336,344,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.681e-03;SAPP=5.380e-05,0.488,0.512;TLOD=-3.393e+00,-3.407e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5055,34,0:2.023e-04,1.960e-04:5089:2557,20,0:2498,14,0 +MT 10841 . A C, . base_quality;t_lod CONTQ=93;DP=5219;ECNT=33;MBQ=28,5,0;MFRL=336,344,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.393e+00,-3.407e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5055,34,0:2.023e-04,1.960e-04:5089:2557,20,0:2498,14,0 MT 10842 . C . . END=10843 GT:DP:MIN_DP:TLOD 0/0:5162:5160:-3.638e+00 -MT 10844 . A C, . base_quality;t_lod CONTQ=93;DP=5131;ECNT=33;MBQ=28,5,0;MFRL=336,351,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.603e-03;SAPP=4.397e-06,0.958,0.042;TLOD=-3.285e+00,-3.399e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4955,43,0:2.605e-04,1.996e-04:4998:2515,13,0:2440,30,0 +MT 10844 . A C, . base_quality;t_lod CONTQ=93;DP=5131;ECNT=33;MBQ=28,5,0;MFRL=336,351,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.285e+00,-3.399e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4955,43,0:2.605e-04,1.996e-04:4998:2515,13,0:2440,30,0 MT 10845 . C . . END=10845 GT:DP:MIN_DP:TLOD 0/0:5089:5089:-3.694e+00 -MT 10846 . C A, . base_quality;t_lod CONTQ=93;DP=5082;ECNT=33;MBQ=29,14,0;MFRL=336,383,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.00,0.010,8.078e-04;SAPP=7.274e-03,4.979e-05,0.993;TLOD=-3.383e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4948,4,0:2.068e-04,2.000e-04:4952:2496,0,0:2452,4,0 +MT 10846 . C A, . base_quality;t_lod CONTQ=93;DP=5082;ECNT=33;MBQ=29,14,0;MFRL=336,383,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.383e+00,-3.398e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4948,4,0:2.068e-04,2.000e-04:4952:2496,0,0:2452,4,0 MT 10847 . C . . END=10849 GT:DP:MIN_DP:TLOD 0/0:5005:4999:-3.700e+00 MT 10850 . A . . END=10850 GT:DP:MIN_DP:TLOD 0/0:4943:4943:-3.490e+00 MT 10851 . G . . END=10870 GT:DP:MIN_DP:TLOD 0/0:4662:4408:-3.690e+00 -MT 10871 . C A, . base_quality;t_lod CONTQ=93;DP=4418;ECNT=33;MBQ=29,13,0;MFRL=334,508,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.394e-03;SAPP=7.366e-04,1.234e-04,0.999;TLOD=-3.279e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4297,6,0:2.624e-04,2.304e-04:4303:2072,3,0:2225,3,0 -MT 10872 . C A, . base_quality;t_lod CONTQ=93;DP=4394;ECNT=33;MBQ=29,13,0;MFRL=334,316,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.168e-03;SAPP=3.998e-04,1.519e-04,0.999;TLOD=-3.319e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4277,5,0:2.399e-04,2.315e-04:4282:2059,2,0:2218,3,0 -MT 10873 . T C,A, . PASS CONTQ=93;DP=4364;ECNT=33;MBQ=28,29,13,0;MFRL=289,334,453,0;MMQ=60,60,60,0;MPOS=37,37,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.997;SAPP=0.037,0.018,0.944;TLOD=13773.30,-2.973e+00,-3.156e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:14,4236,5,0:0.997,3.288e-04,2.327e-04:4255:7,2040,1,0:7,2196,4,0 +MT 10871 . C A, . base_quality;t_lod CONTQ=93;DP=4418;ECNT=33;MBQ=29,13,0;MFRL=334,508,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.279e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4297,6,0:2.624e-04,2.304e-04:4303:2072,3,0:2225,3,0 +MT 10872 . C A, . base_quality;t_lod CONTQ=93;DP=4394;ECNT=33;MBQ=29,13,0;MFRL=334,316,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.319e+00,-3.334e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4277,5,0:2.399e-04,2.315e-04:4282:2059,2,0:2218,3,0 +MT 10873 . T C,A, . PASS CONTQ=93;DP=4364;ECNT=33;MBQ=28,29,13,0;MFRL=289,334,453,0;MMQ=60,60,60,0;MPOS=37,37,0;POPAF=7.30,7.30,7.30;TLOD=13773.30,-2.973e+00,-3.156e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:14,4236,5,0:0.997,3.288e-04,2.327e-04:4255:7,2040,1,0:7,2196,4,0 MT 10874 . C . . END=10878 GT:DP:MIN_DP:TLOD 0/0:4207:4151:-3.627e+00 -MT 10879 . A C, . base_quality;t_lod CONTQ=93;DP=4230;ECNT=33;MBQ=29,8,0;MFRL=332,374,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.597e-03;SAPP=4.924e-03,1.716e-04,0.995;TLOD=-3.293e+00,-3.315e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4086,23,0:2.550e-04,2.419e-04:4109:1964,10,0:2122,13,0 +MT 10879 . A C, . base_quality;t_lod CONTQ=93;DP=4230;ECNT=33;MBQ=29,8,0;MFRL=332,374,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.293e+00,-3.315e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4086,23,0:2.550e-04,2.419e-04:4109:1964,10,0:2122,13,0 MT 10880 . T . . END=10880 GT:DP:MIN_DP:TLOD 0/0:4114:4114:-3.606e+00 MT 10881 . T . . END=10881 GT:DP:MIN_DP:TLOD 0/0:4096:4096:-3.461e+00 MT 10882 . T . . END=10882 GT:DP:MIN_DP:TLOD 0/0:4072:4072:-3.578e+00 MT 10883 . T . . END=10884 GT:DP:MIN_DP:TLOD 0/0:4027:4017:-3.472e+00 MT 10885 . T . . END=10886 GT:DP:MIN_DP:TLOD 0/0:3976:3968:-3.591e+00 -MT 10887 . A C, . base_quality;t_lod CONTQ=93;DP=4039;ECNT=33;MBQ=28,7,0;MFRL=332,366,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.154e-03;SAPP=6.523e-04,5.368e-04,0.999;TLOD=-3.260e+00,-3.294e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3886,28,0:2.752e-04,2.540e-04:3914:1832,21,0:2054,7,0 +MT 10887 . A C, . base_quality;t_lod CONTQ=93;DP=4039;ECNT=33;MBQ=28,7,0;MFRL=332,366,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.260e+00,-3.294e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3886,28,0:2.752e-04,2.540e-04:3914:1832,21,0:2054,7,0 MT 10888 . C . . END=10888 GT:DP:MIN_DP:TLOD 0/0:3927:3927:-3.599e+00 -MT 10889 . C A, . base_quality;t_lod CONTQ=93;DP=3991;ECNT=33;MBQ=28,2,0;MFRL=332,354,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.285e-03;SAPP=1.699e-03,9.837e-05,0.998;TLOD=-3.165e+00,-3.293e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3885,5,0:3.317e-04,2.548e-04:3890:1829,1,0:2056,4,0 +MT 10889 . C A, . base_quality;t_lod CONTQ=93;DP=3991;ECNT=33;MBQ=28,2,0;MFRL=332,354,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.165e+00,-3.293e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3885,5,0:3.317e-04,2.548e-04:3890:1829,1,0:2056,4,0 MT 10890 . A . . END=10891 GT:DP:MIN_DP:TLOD 0/0:3880:3866:-3.534e+00 MT 10892 . A . . END=10892 GT:DP:MIN_DP:TLOD 0/0:3837:3837:-3.394e+00 MT 10893 . T . . END=10895 GT:DP:MIN_DP:TLOD 0/0:3806:3789:-3.581e+00 -MT 10896 . A C, . base_quality;t_lod CONTQ=93;DP=3859;ECNT=33;MBQ=28,8,0;MFRL=331,236,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.00,7.831e-04;SAPP=1.547e-04,3.705e-04,0.999;TLOD=-3.282e+00,-3.283e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3828,3,0:2.614e-04,2.605e-04:3831:1780,1,0:2048,2,0 +MT 10896 . A C, . base_quality;t_lod CONTQ=93;DP=3859;ECNT=33;MBQ=28,8,0;MFRL=331,236,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.282e+00,-3.283e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3828,3,0:2.614e-04,2.605e-04:3831:1780,1,0:2048,2,0 MT 10897 . C . . END=10897 GT:DP:MIN_DP:TLOD 0/0:3742:3742:-3.578e+00 -MT 10898 . A C, . base_quality;t_lod CONTQ=93;DP=3819;ECNT=33;MBQ=28,9,0;MFRL=331,347,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.777e-03;SAPP=1.186e-03,2.340e-04,0.999;TLOD=-3.107e+00,-3.271e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3693,14,0:3.786e-04,2.677e-04:3707:1714,5,0:1979,9,0 +MT 10898 . A C, . base_quality;t_lod CONTQ=93;DP=3819;ECNT=33;MBQ=28,9,0;MFRL=331,347,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.107e+00,-3.271e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3693,14,0:3.786e-04,2.677e-04:3707:1714,5,0:1979,9,0 MT 10899 . A . . END=10901 GT:DP:MIN_DP:TLOD 0/0:3667:3646:-3.561e+00 -MT 10902 . A C, . base_quality;t_lod CONTQ=93;DP=3744;ECNT=33;MBQ=27,8,0;MFRL=331,364,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.017;SAPP=2.467e-04,0.097,0.903;TLOD=-3.031e+00,-3.257e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3561,60,0:4.930e-04,2.768e-04:3621:1637,35,0:1924,25,0 +MT 10902 . A C, . base_quality;t_lod CONTQ=93;DP=3744;ECNT=33;MBQ=27,8,0;MFRL=331,364,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.031e+00,-3.257e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3561,60,0:4.930e-04,2.768e-04:3621:1637,35,0:1924,25,0 MT 10903 . C . . END=10903 GT:DP:MIN_DP:TLOD 0/0:3607:3607:-3.507e+00 MT 10904 . C . . END=10907 GT:DP:MIN_DP:TLOD 0/0:3511:3473:-3.479e+00 MT 10908 . T . . END=10908 GT:DP:MIN_DP:TLOD 0/0:3472:3472:-2.999e+00 MT 10909 . T . . END=10909 GT:DP:MIN_DP:TLOD 0/0:3469:3469:-3.382e+00 MT 10910 . A . . END=10910 GT:DP:MIN_DP:TLOD 0/0:3457:3457:-3.533e+00 -MT 10911 . G T, . base_quality;t_lod CONTQ=93;DP=3605;ECNT=33;MBQ=28,7,0;MFRL=330,331,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.00,0.010,2.300e-03;SAPP=0.972,1.620e-06,0.028;TLOD=-3.241e+00,-3.245e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3471,8,0:2.874e-04,2.843e-04:3479:1572,3,0:1899,5,0 +MT 10911 . G T, . base_quality;t_lod CONTQ=93;DP=3605;ECNT=33;MBQ=28,7,0;MFRL=330,331,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.241e+00,-3.245e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3471,8,0:2.874e-04,2.843e-04:3479:1572,3,0:1899,5,0 MT 10912 . C . . END=10913 GT:DP:MIN_DP:TLOD 0/0:3421:3409:-3.537e+00 MT 10914 . G . . END=10915 GT:DP:MIN_DP:TLOD 0/0:3365:3360:-3.488e+00 -MT 10916 . T C, . base_quality;t_lod CONTQ=93;DP=3577;ECNT=33;MBQ=27,4,0;MFRL=329,351,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.995e-03;SAPP=0.014,1.934e-04,0.985;TLOD=-2.798e+00,-3.238e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3407,24,0:6.431e-04,2.887e-04:3431:1525,8,0:1882,16,0 +MT 10916 . T C, . base_quality;t_lod CONTQ=93;DP=3577;ECNT=33;MBQ=27,4,0;MFRL=329,351,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-2.798e+00,-3.238e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3407,24,0:6.431e-04,2.887e-04:3431:1525,8,0:1882,16,0 MT 10917 . C . . END=10917 GT:DP:MIN_DP:TLOD 0/0:3414:3414:-3.498e+00 MT 10918 . C . . END=10918 GT:DP:MIN_DP:TLOD 0/0:3436:3436:-3.526e+00 MT 10919 . C . . END=10923 GT:DP:MIN_DP:TLOD 0/0:3421:3397:-3.446e+00 @@ -4338,35 +4336,35 @@ MT 10927 . T . . END=10927 GT:DP:MIN_DP:TLOD 0/0:3357:3357:-3.501e+00 MT 10928 . T . . END=10928 GT:DP:MIN_DP:TLOD 0/0:3328:3328:-3.391e+00 MT 10929 . C . . END=10933 GT:DP:MIN_DP:TLOD 0/0:3407:3396:-3.541e+00 MT 10934 . G . . END=10934 GT:DP:MIN_DP:TLOD 0/0:3185:3185:-3.457e+00 -MT 10935 . A C,T, . base_quality;t_lod CONTQ=93;DP=3640;ECNT=33;MBQ=26,4,2,0;MFRL=328,338,414,0;MMQ=60,60,60,0;MPOS=10,16,0;POPAF=7.30,7.30,7.30;SAAF=0.030,0.030,0.036;SAPP=0.991,2.141e-06,9.003e-03;TLOD=-2.865e+00,-3.052e+00,-3.059e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3313,122,8,0:4.878e-04,2.964e-04,2.917e-04:3443:1374,70,5,0:1939,52,3,0 +MT 10935 . A C,T, . base_quality;t_lod CONTQ=93;DP=3640;ECNT=33;MBQ=26,4,2,0;MFRL=328,338,414,0;MMQ=60,60,60,0;MPOS=10,16,0;POPAF=7.30,7.30,7.30;TLOD=-2.865e+00,-3.052e+00,-3.059e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3313,122,8,0:4.878e-04,2.964e-04,2.917e-04:3443:1374,70,5,0:1939,52,3,0 MT 10936 . C . . END=10936 GT:DP:MIN_DP:TLOD 0/0:3355:3355:-3.526e+00 -MT 10937 . C A, . base_quality;t_lod CONTQ=93;DP=3664;ECNT=33;MBQ=28,14,0;MFRL=329,550,0;MMQ=60,60,0;MPOS=75,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.845e-04;SAPP=1.884e-04,1.354e-04,1.000;TLOD=-3.251e+00,-3.251e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3514,1,0:2.806e-04,2.803e-04:3515:1485,0,0:2029,1,0 +MT 10937 . C A, . base_quality;t_lod CONTQ=93;DP=3664;ECNT=33;MBQ=28,14,0;MFRL=329,550,0;MMQ=60,60,0;MPOS=75,0;POPAF=7.30,7.30;TLOD=-3.251e+00,-3.251e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3514,1,0:2.806e-04,2.803e-04:3515:1485,0,0:2029,1,0 MT 10938 . C . . END=10940 GT:DP:MIN_DP:TLOD 0/0:3421:3406:-3.541e+00 -MT 10941 . T C, . base_quality;t_lod CONTQ=93;DP=3693;ECNT=33;MBQ=29,2,0;MFRL=328,330,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=1.000,3.473e-19,4.688e-15;TLOD=-3.216e+00,-3.250e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3481,49,0:3.052e-04,2.813e-04:3530:1462,28,0:2019,21,0 +MT 10941 . T C, . base_quality;t_lod CONTQ=93;DP=3693;ECNT=33;MBQ=29,2,0;MFRL=328,330,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.216e+00,-3.250e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3481,49,0:3.052e-04,2.813e-04:3530:1462,28,0:2019,21,0 MT 10942 . A . . END=10942 GT:DP:MIN_DP:TLOD 0/0:3400:3400:-3.403e+00 -MT 10943 . A C, . base_quality;t_lod CONTQ=93;DP=3732;ECNT=33;MBQ=27,6,0;MFRL=327,367,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.010;SAPP=2.940e-03,3.396e-04,0.997;TLOD=-3.184e+00,-3.255e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3533,36,0:3.301e-04,2.779e-04:3569:1474,18,0:2059,18,0 +MT 10943 . A C, . base_quality;t_lod CONTQ=93;DP=3732;ECNT=33;MBQ=27,6,0;MFRL=327,367,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.184e+00,-3.255e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3533,36,0:3.301e-04,2.779e-04:3569:1474,18,0:2059,18,0 MT 10944 . C . . END=10944 GT:DP:MIN_DP:TLOD 0/0:3427:3427:-3.523e+00 -MT 10945 . A C, . base_quality;t_lod CONTQ=93;DP=3740;ECNT=33;MBQ=27,7,0;MFRL=327,343,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=0.249,1.424e-04,0.751;TLOD=-3.082e+00,-3.256e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3547,50,0:4.299e-04,2.773e-04:3597:1468,29,0:2079,21,0 -MT 10946 . A C, . base_quality;t_lod CONTQ=93;DP=3746;ECNT=33;MBQ=25,5,0;MFRL=327,350,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.030,0.020,0.034;SAPP=1.001e-04,0.680,0.320;TLOD=-2.873e+00,-3.246e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3443,123,0:7.367e-04,2.843e-04:3566:1428,56,0:2015,67,0 +MT 10945 . A C, . base_quality;t_lod CONTQ=93;DP=3740;ECNT=33;MBQ=27,7,0;MFRL=327,343,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.082e+00,-3.256e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3547,50,0:4.299e-04,2.773e-04:3597:1468,29,0:2079,21,0 +MT 10946 . A C, . base_quality;t_lod CONTQ=93;DP=3746;ECNT=33;MBQ=25,5,0;MFRL=327,350,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-2.873e+00,-3.246e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3443,123,0:7.367e-04,2.843e-04:3566:1428,56,0:2015,67,0 MT 10947 . C . . END=10947 GT:DP:MIN_DP:TLOD 0/0:3495:3495:-3.535e+00 MT 10948 . C . . END=10948 GT:DP:MIN_DP:TLOD 0/0:3543:3543:-3.326e+00 -MT 10949 . C A, . t_lod CONTQ=93;DP=3803;ECNT=33;MBQ=28,27,0;MFRL=327,353,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.638e-03;SAPP=5.294e-04,1.937e-04,0.999;TLOD=-2.200e+00,-3.269e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3657,6,0:1.022e-03,2.692e-04:3663:1519,3,0:2138,3,0 +MT 10949 . C A, . t_lod CONTQ=93;DP=3803;ECNT=33;MBQ=28,27,0;MFRL=327,353,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-2.200e+00,-3.269e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3657,6,0:1.022e-03,2.692e-04:3663:1519,3,0:2138,3,0 MT 10950 . C . . END=10950 GT:DP:MIN_DP:TLOD 0/0:3574:3574:-3.484e+00 MT 10951 . C . . END=10952 GT:DP:MIN_DP:TLOD 0/0:3609:3601:-3.565e+00 -MT 10953 . T C, . base_quality;t_lod CONTQ=93;DP=3862;ECNT=33;MBQ=27,2,0;MFRL=327,347,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.013;SAPP=0.999,8.101e-08,7.055e-04;TLOD=-3.214e+00,-3.270e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3651,48,0:3.078e-04,2.687e-04:3699:1507,25,0:2144,23,0 +MT 10953 . T C, . base_quality;t_lod CONTQ=93;DP=3862;ECNT=33;MBQ=27,2,0;MFRL=327,347,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.214e+00,-3.270e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3651,48,0:3.078e-04,2.687e-04:3699:1507,25,0:2144,23,0 MT 10954 . C . . END=10956 GT:DP:MIN_DP:TLOD 0/0:3657:3638:-3.568e+00 MT 10957 . A . . END=10960 GT:DP:MIN_DP:TLOD 0/0:3701:3686:-3.499e+00 MT 10961 . C . . END=10964 GT:DP:MIN_DP:TLOD 0/0:3785:3754:-3.571e+00 MT 10965 . C . . END=10965 GT:DP:MIN_DP:TLOD 0/0:3840:3840:-3.458e+00 -MT 10966 . T C, . base_quality;t_lod CONTQ=93;DP=4000;ECNT=33;MBQ=28,7,0;MFRL=327,328,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.639e-03;SAPP=0.344,6.147e-05,0.656;TLOD=-3.282e+00,-3.291e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3862,18,0:2.613e-04,2.557e-04:3880:1580,8,0:2282,10,0 +MT 10966 . T C, . base_quality;t_lod CONTQ=93;DP=4000;ECNT=33;MBQ=28,7,0;MFRL=327,328,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=-3.282e+00,-3.291e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3862,18,0:2.613e-04,2.557e-04:3880:1580,8,0:2282,10,0 MT 10967 . A . . END=10970 GT:DP:MIN_DP:TLOD 0/0:3917:3866:-3.593e+00 -MT 10971 . G T, . base_quality;t_lod CONTQ=93;DP=4073;ECNT=33;MBQ=27,11,0;MFRL=328,430,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.763e-03;SAPP=4.828e-03,8.918e-05,0.995;TLOD=-3.282e+00,-3.300e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3964,7,0:2.613e-04,2.506e-04:3971:1610,4,0:2354,3,0 -MT 10972 . A C,T, . base_quality;t_lod CONTQ=93;DP=4094;ECNT=33;MBQ=27,7,13,0;MFRL=328,323,401,0;MMQ=60,60,60,0;MPOS=40,8,0;POPAF=7.30,7.30,7.30;SAAF=0.020,0.020,0.020;SAPP=0.019,2.838e-04,0.981;TLOD=-2.981e+00,-3.118e+00,-3.120e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3881,78,3,0:3.580e-04,2.538e-04,2.529e-04:3962:1575,34,2,0:2306,44,1,0 -MT 10973 . C A, . base_quality;t_lod CONTQ=93;DP=4115;ECNT=33;MBQ=28,12,0;MFRL=327,358,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.968e-04;SAPP=1.675e-03,8.124e-05,0.998;TLOD=-3.304e+00,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4009,4,0:2.482e-04,2.471e-04:4013:1632,3,0:2377,1,0 +MT 10971 . G T, . base_quality;t_lod CONTQ=93;DP=4073;ECNT=33;MBQ=27,11,0;MFRL=328,430,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.282e+00,-3.300e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3964,7,0:2.613e-04,2.506e-04:3971:1610,4,0:2354,3,0 +MT 10972 . A C,T, . base_quality;t_lod CONTQ=93;DP=4094;ECNT=33;MBQ=27,7,13,0;MFRL=328,323,401,0;MMQ=60,60,60,0;MPOS=40,8,0;POPAF=7.30,7.30,7.30;TLOD=-2.981e+00,-3.118e+00,-3.120e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3881,78,3,0:3.580e-04,2.538e-04,2.529e-04:3962:1575,34,2,0:2306,44,1,0 +MT 10973 . C A, . base_quality;t_lod CONTQ=93;DP=4115;ECNT=33;MBQ=28,12,0;MFRL=327,358,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.304e+00,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4009,4,0:2.482e-04,2.471e-04:4013:1632,3,0:2377,1,0 MT 10974 . T . . END=10977 GT:DP:MIN_DP:TLOD 0/0:4057:4002:-3.609e+00 -MT 10978 . A C, . base_quality;t_lod CONTQ=93;DP=4219;ECNT=33;MBQ=27,5,0;MFRL=327,354,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.015;SAPP=6.631e-04,9.923e-04,0.998;TLOD=-3.042e+00,-3.310e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4024,63,0:4.818e-04,2.449e-04:4087:1645,28,0:2379,35,0 +MT 10978 . A C, . base_quality;t_lod CONTQ=93;DP=4219;ECNT=33;MBQ=27,5,0;MFRL=327,354,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.042e+00,-3.310e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4024,63,0:4.818e-04,2.449e-04:4087:1645,28,0:2379,35,0 MT 10979 . C . . END=10984 GT:DP:MIN_DP:TLOD 0/0:4184:4110:-3.628e+00 -MT 10985 . A C, . base_quality;t_lod CONTQ=93;DP=4372;ECNT=33;MBQ=28,5,0;MFRL=328,353,0;MMQ=60,60,0;MPOS=61,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.670e-03;SAPP=1.000,1.067e-09,1.331e-05;TLOD=-3.242e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4199,41,0:2.897e-04,2.346e-04:4240:1713,30,0:2486,11,0 +MT 10985 . A C, . base_quality;t_lod CONTQ=93;DP=4372;ECNT=33;MBQ=28,5,0;MFRL=328,353,0;MMQ=60,60,0;MPOS=61,0;POPAF=7.30,7.30;TLOD=-3.242e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4199,41,0:2.897e-04,2.346e-04:4240:1713,30,0:2486,11,0 MT 10986 . C . . END=10986 GT:DP:MIN_DP:TLOD 0/0:5575:5575:-3.622e+00 MT 10987 . A . . END=10987 GT:DP:MIN_DP:TLOD 0/0:5549:5549:-2.773e+00 MT 10988 . A . . END=10988 GT:DP:MIN_DP:TLOD 0/0:5519:5519:-3.569e+00 @@ -4623,31 +4621,31 @@ MT 11681 . A . . END=11681 GT:DP:MIN_DP:TLOD 0/0:5941:5941:-3.714e+00 MT 11682 . G . . END=11682 GT:DP:MIN_DP:TLOD 0/0:5901:5901:-3.116e+00 MT 11683 . C . . END=11690 GT:DP:MIN_DP:TLOD 0/0:5986:5871:-3.765e+00 MT 11691 . G . . END=11691 GT:DP:MIN_DP:TLOD 0/0:5796:5796:-3.249e+00 -MT 11692 . C A, . base_quality;t_lod CONTQ=93;DP=5637;ECNT=13;MBQ=24,13,0;MFRL=340,373,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.147e-04;SAPP=2.679e-04,1.192e-04,1.000;TLOD=-3.426e+00,-3.441e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5461,5,0:1.877e-04,1.813e-04:5466:2735,3,0:2726,2,0 -MT 11693 . G T, . base_quality;t_lod CONTQ=93;DP=5648;ECNT=13;MBQ=25,12,0;MFRL=340,355,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.283e-03;SAPP=7.810e-05,1.732e-03,0.998;TLOD=-3.437e+00,-3.440e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5448,7,0:1.827e-04,1.816e-04:5455:2727,6,0:2721,1,0 -MT 11694 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5646;ECNT=13;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=6.024e-05,5.536e-05,1.000;TLOD=-3.442e+00,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5461,0,0:1.808e-04,1.808e-04:5461:2740,0,0:2721,0,0 +MT 11692 . C A, . base_quality;t_lod CONTQ=93;DP=5637;ECNT=13;MBQ=24,13,0;MFRL=340,373,0;MMQ=60,60,0;MPOS=53,0;POPAF=7.30,7.30;TLOD=-3.426e+00,-3.441e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5461,5,0:1.877e-04,1.813e-04:5466:2735,3,0:2726,2,0 +MT 11693 . G T, . base_quality;t_lod CONTQ=93;DP=5648;ECNT=13;MBQ=25,12,0;MFRL=340,355,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;TLOD=-3.437e+00,-3.440e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5448,7,0:1.827e-04,1.816e-04:5455:2727,6,0:2721,1,0 +MT 11694 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5646;ECNT=13;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.442e+00,-3.442e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5461,0,0:1.808e-04,1.808e-04:5461:2740,0,0:2721,0,0 MT 11695 . A . . END=11710 GT:DP:MIN_DP:TLOD 0/0:5578:5522:-3.748e+00 -MT 11711 . G T, . base_quality;t_lod CONTQ=93;DP=5701;ECNT=13;MBQ=24,14,0;MFRL=341,352,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.814e-03;SAPP=9.531e-04,1.028e-04,0.999;TLOD=-3.406e+00,-3.444e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5504,10,0:1.963e-04,1.799e-04:5514:2714,7,0:2790,3,0 +MT 11711 . G T, . base_quality;t_lod CONTQ=93;DP=5701;ECNT=13;MBQ=24,14,0;MFRL=341,352,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.406e+00,-3.444e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5504,10,0:1.963e-04,1.799e-04:5514:2714,7,0:2790,3,0 MT 11712 . C . . END=11713 GT:DP:MIN_DP:TLOD 0/0:5613:5602:-3.640e+00 -MT 11714 . C A, . base_quality;t_lod CONTQ=93;DP=5718;ECNT=13;MBQ=29,13,0;MFRL=341,371,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.412e-04;SAPP=2.134e-04,8.976e-05,1.000;TLOD=-3.309e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5540,3,0:2.364e-04,1.783e-04:5543:2722,0,0:2818,3,0 +MT 11714 . C A, . base_quality;t_lod CONTQ=93;DP=5718;ECNT=13;MBQ=29,13,0;MFRL=341,371,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.309e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5540,3,0:2.364e-04,1.783e-04:5543:2722,0,0:2818,3,0 MT 11715 . A . . END=11716 GT:DP:MIN_DP:TLOD 0/0:5629:5618:-3.751e+00 MT 11717 . G . . END=11717 GT:DP:MIN_DP:TLOD 0/0:5560:5560:-3.468e+00 -MT 11718 . G T, . base_quality;t_lod CONTQ=93;DP=5744;ECNT=13;MBQ=28,11,0;MFRL=341,329,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.190e-04;SAPP=1.441e-04,1.432e-04,1.000;TLOD=-3.447e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5559,4,0:1.786e-04,1.780e-04:5563:2727,4,0:2832,0,0 -MT 11719 . G A,C, . PASS CONTQ=93;DP=5737;ECNT=13;MBQ=26,28,4,0;MFRL=332,340,380,0;MMQ=60,60,60,0;MPOS=40,25,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.992;SAPP=0.015,0.033,0.952;TLOD=17026.83,-3.089e+00,-3.271e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:44,5475,50,0:0.995,2.773e-04,1.790e-04:5569:25,2697,15,0:19,2778,35,0 +MT 11718 . G T, . base_quality;t_lod CONTQ=93;DP=5744;ECNT=13;MBQ=28,11,0;MFRL=341,329,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.447e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5559,4,0:1.786e-04,1.780e-04:5563:2727,4,0:2832,0,0 +MT 11719 . G A,C, . PASS CONTQ=93;DP=5737;ECNT=13;MBQ=26,28,4,0;MFRL=332,340,380,0;MMQ=60,60,60,0;MPOS=40,25,0;POPAF=7.30,7.30,7.30;TLOD=17026.83,-3.089e+00,-3.271e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:44,5475,50,0:0.995,2.773e-04,1.790e-04:5569:25,2697,15,0:19,2778,35,0 MT 11720 . C . . END=11722 GT:DP:MIN_DP:TLOD 0/0:5622:5599:-3.746e+00 -MT 11723 . A T, . t_lod CONTQ=93;DP=5760;ECNT=13;MBQ=29,20,0;MFRL=341,303,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.595e-04;SAPP=1.172e-04,1.214e-04,1.000;TLOD=-3.363e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5562,2,0:2.145e-04,1.775e-04:5564:2727,1,0:2835,1,0 +MT 11723 . A T, . t_lod CONTQ=93;DP=5760;ECNT=13;MBQ=29,20,0;MFRL=341,303,0;MMQ=60,60,0;MPOS=35,0;POPAF=7.30,7.30;TLOD=-3.363e+00,-3.450e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5562,2,0:2.145e-04,1.775e-04:5564:2727,1,0:2835,1,0 MT 11724 . C . . END=11728 GT:DP:MIN_DP:TLOD 0/0:5621:5605:-3.744e+00 -MT 11729 . T G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5722;ECNT=13;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=5.499e-05,5.673e-05,1.000;TLOD=-3.453e+00,-3.453e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5642,0,0:1.762e-04,1.762e-04:5642:2759,0,0:2883,0,0 +MT 11729 . T G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=5722;ECNT=13;MBQ=28,0,0;MFRL=340,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.453e+00,-3.453e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5642,0,0:1.762e-04,1.762e-04:5642:2759,0,0:2883,0,0 MT 11730 . C . . END=11733 GT:DP:MIN_DP:TLOD 0/0:5614:5611:-3.748e+00 MT 11734 . A . . END=11734 GT:DP:MIN_DP:TLOD 0/0:5606:5606:-3.400e+00 MT 11735 . C . . END=11741 GT:DP:MIN_DP:TLOD 0/0:5609:5601:-3.748e+00 -MT 11742 . G T, . t_lod CONTQ=93;DP=5677;ECNT=13;MBQ=29,27,0;MFRL=339,308,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.376e-04;SAPP=8.664e-05,2.224e-04,1.000;TLOD=-3.350e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5577,3,0:2.208e-04,1.783e-04:5580:2751,1,0:2826,2,0 +MT 11742 . G T, . t_lod CONTQ=93;DP=5677;ECNT=13;MBQ=29,27,0;MFRL=339,308,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.350e+00,-3.448e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5577,3,0:2.208e-04,1.783e-04:5580:2751,1,0:2826,2,0 MT 11743 . C . . END=11746 GT:DP:MIN_DP:TLOD 0/0:5808:5734:-3.763e+00 -MT 11747 . G T, . base_quality;t_lod CONTQ=93;DP=5857;ECNT=13;MBQ=28,13,0;MFRL=339,326,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.957e-04;SAPP=2.901e-04,8.651e-05,1.000;TLOD=-3.458e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5746,4,0:1.741e-04,1.730e-04:5750:2808,4,0:2938,0,0 +MT 11747 . G T, . base_quality;t_lod CONTQ=93;DP=5857;ECNT=13;MBQ=28,13,0;MFRL=339,326,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.458e+00,-3.461e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5746,4,0:1.741e-04,1.730e-04:5750:2808,4,0:2938,0,0 MT 11748 . C . . END=11750 GT:DP:MIN_DP:TLOD 0/0:5962:5904:-3.765e+00 -MT 11751 . A C, . base_quality;t_lod CONTQ=93;DP=5974;ECNT=13;MBQ=28,7,0;MFRL=339,358,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.975e-03;SAPP=4.644e-05,0.476,0.524;TLOD=-3.410e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5837,41,0:1.956e-04,1.701e-04:5878:2850,22,0:2987,19,0 +MT 11751 . A C, . base_quality;t_lod CONTQ=93;DP=5974;ECNT=13;MBQ=28,7,0;MFRL=339,358,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.410e+00,-3.468e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5837,41,0:1.956e-04,1.701e-04:5878:2850,22,0:2987,19,0 MT 11752 . C . . END=11755 GT:DP:MIN_DP:TLOD 0/0:6112:6037:-3.775e+00 -MT 11756 . A C, . base_quality;t_lod CONTQ=93;DP=6164;ECNT=13;MBQ=28,8,0;MFRL=339,401,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.111e-03;SAPP=1.362e-04,2.509e-03,0.997;TLOD=-3.407e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6034,31,0:1.972e-04,1.647e-04:6065:2945,15,0:3089,16,0 +MT 11756 . A C, . base_quality;t_lod CONTQ=93;DP=6164;ECNT=13;MBQ=28,8,0;MFRL=339,401,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.407e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6034,31,0:1.972e-04,1.647e-04:6065:2945,15,0:3089,16,0 MT 11757 . A . . END=11757 GT:DP:MIN_DP:TLOD 0/0:6755:6755:-2.546e+00 MT 11758 . C . . END=11760 GT:DP:MIN_DP:TLOD 0/0:6863:6805:-3.766e+00 MT 11761 . C . . END=11761 GT:DP:MIN_DP:TLOD 0/0:6884:6884:-3.431e+00 @@ -4972,46 +4970,46 @@ MT 12642 . A . . END=12642 GT:DP:MIN_DP:TLOD 0/0:7151:7151:-3.158e+00 MT 12643 . T . . END=12652 GT:DP:MIN_DP:TLOD 0/0:7170:7114:-3.847e+00 MT 12653 . G . . END=12654 GT:DP:MIN_DP:TLOD 0/0:7171:7166:-3.453e+00 MT 12655 . T . . END=12668 GT:DP:MIN_DP:TLOD 0/0:7180:7122:-3.788e+00 -MT 12669 . C T, . base_quality;t_lod CONTQ=93;DP=6618;ECNT=22;MBQ=28,12,0;MFRL=336,378,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.658e-04;SAPP=1.039e-03,4.489e-05,0.999;TLOD=-3.511e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6437,3,0:1.541e-04,1.538e-04:6440:3127,0,0:3310,3,0 -MT 12670 . C T, . base_quality;t_lod CONTQ=93;DP=6617;ECNT=22;MBQ=28,12,0;MFRL=336,553,0;MMQ=60,60,0;MPOS=73,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.655e-04;SAPP=2.219e-04,7.152e-05,1.000;TLOD=-3.417e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6441,3,0:1.886e-04,1.537e-04:6444:3124,2,0:3317,1,0 -MT 12671 . C A, . base_quality;t_lod CONTQ=93;DP=6621;ECNT=22;MBQ=28,12,0;MFRL=336,374,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.312e-04;SAPP=1.126e-04,2.554e-04,1.000;TLOD=-3.402e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6437,6,0:1.955e-04,1.537e-04:6443:3114,2,0:3323,4,0 -MT 12672 . A C, . base_quality;t_lod CONTQ=93;DP=6619;ECNT=22;MBQ=29,8,0;MFRL=336,409,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.862e-03;SAPP=1.233e-04,4.464e-04,0.999;TLOD=-3.496e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6433,12,0:1.597e-04,1.537e-04:6445:3106,5,0:3327,7,0 -MT 12673 . A C, . base_quality;t_lod CONTQ=93;DP=6620;ECNT=22;MBQ=28,8,0;MFRL=336,389,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.274e-03;SAPP=7.246e-04,1.942e-04,0.999;TLOD=-3.305e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6413,34,0:2.433e-04,1.541e-04:6447:3094,17,0:3319,17,0 +MT 12669 . C T, . base_quality;t_lod CONTQ=93;DP=6618;ECNT=22;MBQ=28,12,0;MFRL=336,378,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.511e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6437,3,0:1.541e-04,1.538e-04:6440:3127,0,0:3310,3,0 +MT 12670 . C T, . base_quality;t_lod CONTQ=93;DP=6617;ECNT=22;MBQ=28,12,0;MFRL=336,553,0;MMQ=60,60,0;MPOS=73,0;POPAF=7.30,7.30;TLOD=-3.417e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6441,3,0:1.886e-04,1.537e-04:6444:3124,2,0:3317,1,0 +MT 12671 . C A, . base_quality;t_lod CONTQ=93;DP=6621;ECNT=22;MBQ=28,12,0;MFRL=336,374,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.402e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6437,6,0:1.955e-04,1.537e-04:6443:3114,2,0:3323,4,0 +MT 12672 . A C, . base_quality;t_lod CONTQ=93;DP=6619;ECNT=22;MBQ=29,8,0;MFRL=336,409,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.496e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6433,12,0:1.597e-04,1.537e-04:6445:3106,5,0:3327,7,0 +MT 12673 . A C, . base_quality;t_lod CONTQ=93;DP=6620;ECNT=22;MBQ=28,8,0;MFRL=336,389,0;MMQ=60,60,0;MPOS=34,0;POPAF=7.30,7.30;TLOD=-3.305e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6413,34,0:2.433e-04,1.541e-04:6447:3094,17,0:3319,17,0 MT 12674 . A . . END=12679 GT:DP:MIN_DP:TLOD 0/0:6598:6593:-3.805e+00 -MT 12680 . A C, . base_quality;t_lod CONTQ=93;DP=6641;ECNT=22;MBQ=28,7,0;MFRL=335,374,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.943e-03;SAPP=2.687e-04,2.537e-04,0.999;TLOD=-3.468e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6438,19,0:1.705e-04,1.536e-04:6457:3083,9,0:3355,10,0 +MT 12680 . A C, . base_quality;t_lod CONTQ=93;DP=6641;ECNT=22;MBQ=28,7,0;MFRL=335,374,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.468e+00,-3.513e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6438,19,0:1.705e-04,1.536e-04:6457:3083,9,0:3355,10,0 MT 12681 . T . . END=12683 GT:DP:MIN_DP:TLOD 0/0:6606:6586:-3.792e+00 -MT 12684 . G A, . t_lod CONTQ=93;DP=6655;ECNT=22;MBQ=28,28,0;MFRL=336,280,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.474e-03;SAPP=3.248e-04,2.286e-04,0.999;TLOD=0.415,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6451,16,0:1.466e-03,1.532e-04:6467:3091,5,0:3360,11,0 +MT 12684 . G A, . t_lod CONTQ=93;DP=6655;ECNT=22;MBQ=28,28,0;MFRL=336,280,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=0.415,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6451,16,0:1.466e-03,1.532e-04:6467:3091,5,0:3360,11,0 MT 12685 . T . . END=12687 GT:DP:MIN_DP:TLOD 0/0:6622:6622:-3.813e+00 -MT 12688 . T G, . base_quality;t_lod CONTQ=93;DP=6682;ECNT=22;MBQ=29,5,0;MFRL=336,351,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.773e-03;SAPP=4.895e-04,1.692e-04,0.999;TLOD=-3.412e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6474,18,0:1.932e-04,1.526e-04:6492:3100,8,0:3374,10,0 +MT 12688 . T G, . base_quality;t_lod CONTQ=93;DP=6682;ECNT=22;MBQ=29,5,0;MFRL=336,351,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.412e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6474,18,0:1.932e-04,1.526e-04:6492:3100,8,0:3374,10,0 MT 12689 . T . . END=12694 GT:DP:MIN_DP:TLOD 0/0:6641:6635:-3.815e+00 -MT 12695 . A C, . base_quality;t_lod CONTQ=93;DP=6704;ECNT=22;MBQ=29,8,0;MFRL=335,366,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.609e-03;SAPP=1.262e-04,3.006e-03,0.997;TLOD=-3.295e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6479,30,0:2.559e-04,1.523e-04:6509:3089,12,0:3390,18,0 +MT 12695 . A C, . base_quality;t_lod CONTQ=93;DP=6704;ECNT=22;MBQ=29,8,0;MFRL=335,366,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.295e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6479,30,0:2.559e-04,1.523e-04:6509:3089,12,0:3390,18,0 MT 12696 . T . . END=12696 GT:DP:MIN_DP:TLOD 0/0:6618:6618:-3.812e+00 -MT 12697 . C A, . base_quality;t_lod CONTQ=93;DP=6695;ECNT=22;MBQ=28,11,0;MFRL=336,316,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.686e-04;SAPP=5.354e-04,6.613e-05,0.999;TLOD=-3.422e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6500,5,0:1.868e-04,1.522e-04:6505:3097,2,0:3403,3,0 +MT 12697 . C A, . base_quality;t_lod CONTQ=93;DP=6695;ECNT=22;MBQ=28,11,0;MFRL=336,316,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.422e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6500,5,0:1.868e-04,1.522e-04:6505:3097,2,0:3403,3,0 MT 12698 . T . . END=12698 GT:DP:MIN_DP:TLOD 0/0:6635:6635:-3.786e+00 MT 12699 . A . . END=12699 GT:DP:MIN_DP:TLOD 0/0:6606:6606:-3.440e+00 MT 12700 . C . . END=12701 GT:DP:MIN_DP:TLOD 0/0:6603:6591:-3.815e+00 -MT 12702 . C A, . base_quality;t_lod CONTQ=93;DP=6694;ECNT=22;MBQ=28,14,0;MFRL=336,317,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.386e-03;SAPP=0.050,4.604e-05,0.950;TLOD=-3.365e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6485,9,0:2.104e-04,1.524e-04:6494:3075,4,0:3410,5,0 -MT 12703 . A T, . base_quality;t_lod CONTQ=93;DP=6693;ECNT=22;MBQ=28,11,0;MFRL=336,376,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.084e-03;SAPP=8.874e-05,5.599e-04,0.999;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6453,7,0:1.554e-04,1.529e-04:6460:3062,6,0:3391,1,0 +MT 12702 . C A, . base_quality;t_lod CONTQ=93;DP=6694;ECNT=22;MBQ=28,14,0;MFRL=336,317,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.365e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6485,9,0:2.104e-04,1.524e-04:6494:3075,4,0:3410,5,0 +MT 12703 . A T, . base_quality;t_lod CONTQ=93;DP=6693;ECNT=22;MBQ=28,11,0;MFRL=336,376,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6453,7,0:1.554e-04,1.529e-04:6460:3062,6,0:3391,1,0 MT 12704 . T . . END=12704 GT:DP:MIN_DP:TLOD 0/0:6612:6612:-3.481e+00 -MT 12705 . C T, . PASS CONTQ=93;DP=6668;ECNT=22;MBQ=28,29,0;MFRL=303,336,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.995;SAPP=0.015,0.052,0.933;TLOD=20935.18,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:31,6466,0:0.997,1.527e-04:6497:11,3076,0:20,3390,0 +MT 12705 . C T, . PASS CONTQ=93;DP=6668;ECNT=22;MBQ=28,29,0;MFRL=303,336,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=20935.18,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:31,6466,0:0.997,1.527e-04:6497:11,3076,0:20,3390,0 MT 12706 . T . . END=12706 GT:DP:MIN_DP:TLOD 0/0:6626:6626:-3.677e+00 -MT 12707 . T G, . base_quality;t_lod CONTQ=93;DP=6666;ECNT=22;MBQ=28,7,0;MFRL=336,382,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.854e-03;SAPP=5.920e-04,1.077e-04,0.999;TLOD=-3.468e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,12,0:1.705e-04,1.528e-04:6474:3067,5,0:3395,7,0 +MT 12707 . T G, . base_quality;t_lod CONTQ=93;DP=6666;ECNT=22;MBQ=28,7,0;MFRL=336,382,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.468e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6462,12,0:1.705e-04,1.528e-04:6474:3067,5,0:3395,7,0 MT 12708 . C . . END=12712 GT:DP:MIN_DP:TLOD 0/0:6608:6576:-3.803e+00 -MT 12713 . T A, . base_quality;t_lod CONTQ=93;DP=6658;ECNT=22;MBQ=29,13,0;MFRL=337,383,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.727e-04;SAPP=9.894e-05,2.041e-04,1.000;TLOD=-3.513e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6466,5,0:1.536e-04,1.530e-04:6471:3068,1,0:3398,4,0 +MT 12713 . T A, . base_quality;t_lod CONTQ=93;DP=6658;ECNT=22;MBQ=29,13,0;MFRL=337,383,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.513e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6466,5,0:1.536e-04,1.530e-04:6471:3068,1,0:3398,4,0 MT 12714 . T . . END=12717 GT:DP:MIN_DP:TLOD 0/0:6570:6547:-3.808e+00 -MT 12718 . A AGAC, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6633;ECNT=22;MBQ=29,0,0;MFRL=337,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.671e-05,5.013e-05,1.000;TLOD=-3.517e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6517,0,0:1.522e-04,1.522e-04:6517:3056,0,0:3461,0,0:0|1:12718_A_AGAC:12718 +MT 12718 . A AGAC, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6633;ECNT=22;MBQ=29,0,0;MFRL=337,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.517e+00,-3.517e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6517,0,0:1.522e-04,1.522e-04:6517:3056,0,0:3461,0,0:0|1:12718_A_AGAC:12718 MT 12719 . T . . END=12719 GT:DP:MIN_DP:TLOD 0/0:6589:6589:-3.731e+00 -MT 12720 . A AAT, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6632;ECNT=22;MBQ=29,0,0;MFRL=337,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=4.678e-05,5.015e-05,1.000;TLOD=-3.516e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6511,0,0:1.523e-04,1.523e-04:6511:3052,0,0:3459,0,0:0|1:12718_A_AGAC:12718 +MT 12720 . A AAT, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=6632;ECNT=22;MBQ=29,0,0;MFRL=337,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.516e+00,-3.516e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:6511,0,0:1.523e-04,1.523e-04:6511:3052,0,0:3459,0,0:0|1:12718_A_AGAC:12718 MT 12721 . C . . END=12722 GT:DP:MIN_DP:TLOD 0/0:6549:6530:-3.797e+00 -MT 12723 . A C, . base_quality;t_lod CONTQ=93;DP=6619;ECNT=22;MBQ=29,9,0;MFRL=337,425,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.947e-03;SAPP=4.068e-04,1.844e-04,0.999;TLOD=-3.340e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6428,19,0:2.269e-04,1.540e-04:6447:3023,9,0:3405,10,0 +MT 12723 . A C, . base_quality;t_lod CONTQ=93;DP=6619;ECNT=22;MBQ=29,9,0;MFRL=337,425,0;MMQ=60,60,0;MPOS=12,0;POPAF=7.30,7.30;TLOD=-3.340e+00,-3.512e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6428,19,0:2.269e-04,1.540e-04:6447:3023,9,0:3405,10,0 MT 12724 . A . . END=12727 GT:DP:MIN_DP:TLOD 0/0:6563:6555:-3.773e+00 -MT 12728 . T G, . base_quality;t_lod CONTQ=93;DP=6609;ECNT=22;MBQ=29,8,0;MFRL=338,324,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.208e-04;SAPP=8.995e-05,3.619e-04,1.000;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6510,6,0:1.553e-04,1.526e-04:6516:3047,6,0:3463,0,0 +MT 12728 . T G, . base_quality;t_lod CONTQ=93;DP=6609;ECNT=22;MBQ=29,8,0;MFRL=338,324,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.508e+00,-3.515e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6510,6,0:1.553e-04,1.526e-04:6516:3047,6,0:3463,0,0 MT 12729 . A . . END=12729 GT:DP:MIN_DP:TLOD 0/0:6574:6574:-3.803e+00 -MT 12730 . G T, . base_quality;t_lod CONTQ=93;DP=6613;ECNT=22;MBQ=28,12,0;MFRL=338,355,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.110e-03;SAPP=0.674,1.852e-05,0.326;TLOD=-3.424e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6411,20,0:1.889e-04,1.543e-04:6431:3007,9,0:3404,11,0 +MT 12730 . G T, . base_quality;t_lod CONTQ=93;DP=6613;ECNT=22;MBQ=28,12,0;MFRL=338,355,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.424e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6411,20,0:1.889e-04,1.543e-04:6431:3007,9,0:3404,11,0 MT 12731 . T . . END=12734 GT:DP:MIN_DP:TLOD 0/0:6569:6525:-3.801e+00 -MT 12735 . C A, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=22;MBQ=25,13,0;MFRL=338,300,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.026e-03;SAPP=3.639e-04,1.540e-04,0.999;TLOD=-3.274e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6405,13,0:2.522e-04,1.546e-04:6418:2999,2,0:3406,11,0 +MT 12735 . C A, . base_quality;t_lod CONTQ=93;DP=6592;ECNT=22;MBQ=25,13,0;MFRL=338,300,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.274e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6405,13,0:2.522e-04,1.546e-04:6418:2999,2,0:3406,11,0 MT 12736 . G . . END=12740 GT:DP:MIN_DP:TLOD 0/0:6530:6414:-3.812e+00 -MT 12741 . C A, . base_quality;t_lod CONTQ=93;DP=6588;ECNT=22;MBQ=28,11,0;MFRL=338,396,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.089e-03;SAPP=4.211e-04,1.021e-04,0.999;TLOD=-3.432e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6420,7,0:1.846e-04,1.543e-04:6427:3002,3,0:3418,4,0 +MT 12741 . C A, . base_quality;t_lod CONTQ=93;DP=6588;ECNT=22;MBQ=28,11,0;MFRL=338,396,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.432e+00,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6420,7,0:1.846e-04,1.543e-04:6427:3002,3,0:3418,4,0 MT 12742 . A . . END=12746 GT:DP:MIN_DP:TLOD 0/0:7168:7121:-3.820e+00 MT 12747 . A . . END=12747 GT:DP:MIN_DP:TLOD 0/0:7132:7132:-3.100e+00 MT 12748 . T . . END=12752 GT:DP:MIN_DP:TLOD 0/0:7137:7125:-3.810e+00 @@ -5061,20 +5059,20 @@ MT 12967 . A . . END=12967 GT:DP:MIN_DP:TLOD 0/0:7105:7105:-3.375e+00 MT 12968 . C . . END=12971 GT:DP:MIN_DP:TLOD 0/0:7239:7200:-3.744e+00 MT 12972 . A . . END=12972 GT:DP:MIN_DP:TLOD 0/0:7164:7164:-3.366e+00 MT 12973 . C . . END=12977 GT:DP:MIN_DP:TLOD 0/0:7145:7139:-3.848e+00 -MT 12978 . A C, . base_quality;t_lod CONTQ=93;DP=6811;ECNT=8;MBQ=29,3,0;MFRL=341,390,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.596e-03;SAPP=5.847e-07,0.992,7.765e-03;TLOD=-3.456e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6574,57,0:1.754e-04,1.504e-04:6631:3176,28,0:3398,29,0 -MT 12979 . G A, . base_quality;t_lod CONTQ=93;DP=6811;ECNT=8;MBQ=28,12,0;MFRL=342,357,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.045e-04;SAPP=1.524e-03,4.643e-05,0.998;TLOD=-3.522e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6613,4,0:1.504e-04,1.500e-04:6617:3194,1,0:3419,3,0 +MT 12978 . A C, . base_quality;t_lod CONTQ=93;DP=6811;ECNT=8;MBQ=29,3,0;MFRL=341,390,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.456e+00,-3.522e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6574,57,0:1.754e-04,1.504e-04:6631:3176,28,0:3398,29,0 +MT 12979 . G A, . base_quality;t_lod CONTQ=93;DP=6811;ECNT=8;MBQ=28,12,0;MFRL=342,357,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=-3.522e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6613,4,0:1.504e-04,1.500e-04:6617:3194,1,0:3419,3,0 MT 12980 . G . . END=12985 GT:DP:MIN_DP:TLOD 0/0:6743:6578:-3.826e+00 -MT 12986 . T C, . base_quality;t_lod CONTQ=93;DP=6807;ECNT=8;MBQ=28,2,0;MFRL=342,351,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.186e-03;SAPP=9.504e-04,2.278e-04,0.999;TLOD=-3.354e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6587,41,0:2.240e-04,1.501e-04:6628:3180,19,0:3407,22,0 +MT 12986 . T C, . base_quality;t_lod CONTQ=93;DP=6807;ECNT=8;MBQ=28,2,0;MFRL=342,351,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-3.354e+00,-3.523e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6587,41,0:2.240e-04,1.501e-04:6628:3180,19,0:3407,22,0 MT 12987 . C . . END=12996 GT:DP:MIN_DP:TLOD 0/0:6760:6716:-3.831e+00 -MT 12997 . G T, . base_quality;t_lod CONTQ=93;DP=6747;ECNT=8;MBQ=28,12,0;MFRL=344,402,0;MMQ=60,60,0;MPOS=67,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.614e-04;SAPP=1.016e-04,1.867e-04,1.000;TLOD=-3.445e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6562,5,0:1.781e-04,1.510e-04:6567:3161,5,0:3401,0,0 +MT 12997 . G T, . base_quality;t_lod CONTQ=93;DP=6747;ECNT=8;MBQ=28,12,0;MFRL=344,402,0;MMQ=60,60,0;MPOS=67,0;POPAF=7.30,7.30;TLOD=-3.445e+00,-3.520e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6562,5,0:1.781e-04,1.510e-04:6567:3161,5,0:3401,0,0 MT 12998 . C . . END=12999 GT:DP:MIN_DP:TLOD 0/0:6724:6718:-3.827e+00 -MT 13000 . G T, . base_quality;t_lod CONTQ=93;DP=6726;ECNT=8;MBQ=28,12,0;MFRL=343,351,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.376e-03;SAPP=2.469e-04,1.492e-04,1.000;TLOD=-3.478e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6533,9,0:1.664e-04,1.515e-04:6542:3141,8,0:3392,1,0 +MT 13000 . G T, . base_quality;t_lod CONTQ=93;DP=6726;ECNT=8;MBQ=28,12,0;MFRL=343,351,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6533,9,0:1.664e-04,1.515e-04:6542:3141,8,0:3392,1,0 MT 13001 . G . . END=13009 GT:DP:MIN_DP:TLOD 0/0:6684:6643:-3.822e+00 -MT 13010 . C A, . base_quality;t_lod CONTQ=93;DP=6721;ECNT=8;MBQ=29,14,0;MFRL=344,318,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.377e-03;SAPP=1.395e-04,2.710e-04,1.000;TLOD=-3.507e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6527,9,0:1.555e-04,1.514e-04:6536:3107,4,0:3420,5,0 +MT 13010 . C A, . base_quality;t_lod CONTQ=93;DP=6721;ECNT=8;MBQ=29,14,0;MFRL=344,318,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.507e+00,-3.519e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6527,9,0:1.555e-04,1.514e-04:6536:3107,4,0:3420,5,0 MT 13011 . C . . END=13014 GT:DP:MIN_DP:TLOD 0/0:6679:6637:-3.789e+00 -MT 13015 . T C, . PASS CONTQ=93;DP=6707;ECNT=8;MBQ=28,28,0;MFRL=307,344,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.993;SAPP=0.018,0.032,0.950;TLOD=20404.45,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:44,6499,0:0.994,1.516e-04:6543:17,3113,0:27,3386,0 +MT 13015 . T C, . PASS CONTQ=93;DP=6707;ECNT=8;MBQ=28,28,0;MFRL=307,344,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=20404.45,-3.518e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:44,6499,0:0.994,1.516e-04:6543:17,3113,0:27,3386,0 MT 13016 . T . . END=13019 GT:DP:MIN_DP:TLOD 0/0:6593:6454:-3.798e+00 -MT 13020 . T A,C, . base_quality;t_lod CONTQ=93;DP=6673;ECNT=8;MBQ=28,13,6,0;MFRL=343,342,406,0;MMQ=60,60,60,0;MPOS=23,13,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.646e-03;SAPP=1.499e-04,6.475e-04,0.999;TLOD=-3.333e+00,-3.109e+00,-3.343e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6407,7,17,0:1.550e-04,2.483e-04,1.515e-04:6431:3070,4,11,0:3337,3,6,0 +MT 13020 . T A,C, . base_quality;t_lod CONTQ=93;DP=6673;ECNT=8;MBQ=28,13,6,0;MFRL=343,342,406,0;MMQ=60,60,60,0;MPOS=23,13,0;POPAF=7.30,7.30,7.30;TLOD=-3.333e+00,-3.109e+00,-3.343e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6407,7,17,0:1.550e-04,2.483e-04,1.515e-04:6431:3070,4,11,0:3337,3,6,0 MT 13021 . C . . END=13024 GT:DP:MIN_DP:TLOD 0/0:7144:7114:-3.847e+00 MT 13025 . A . . END=13025 GT:DP:MIN_DP:TLOD 0/0:7097:7097:-2.955e+00 MT 13026 . C . . END=13031 GT:DP:MIN_DP:TLOD 0/0:7197:7033:-3.799e+00 @@ -5328,47 +5326,47 @@ MT 13721 . T . . END=13721 GT:DP:MIN_DP:TLOD 0/0:6923:6923:-3.222e+00 MT 13722 . A . . END=13727 GT:DP:MIN_DP:TLOD 0/0:6920:6730:-3.828e+00 MT 13728 . A . . END=13728 GT:DP:MIN_DP:TLOD 0/0:6904:6904:-3.420e+00 MT 13729 . G . . END=13729 GT:DP:MIN_DP:TLOD 0/0:6872:6872:-3.775e+00 -MT 13730 . G A, . base_quality;t_lod CONTQ=93;DP=4614;ECNT=23;MBQ=28,7,0;MFRL=329,364,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.933e-04;SAPP=6.344e-04,9.660e-05,0.999;TLOD=-3.216e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4474,4,0:2.931e-04,2.212e-04:4478:2019,3,0:2455,1,0 -MT 13731 . A C, . base_quality;t_lod CONTQ=93;DP=4616;ECNT=23;MBQ=28,7,0;MFRL=329,319,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.797e-03;SAPP=3.876e-03,1.407e-04,0.996;TLOD=-3.335e+00,-3.354e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4460,17,0:2.312e-04,2.215e-04:4477:2014,13,0:2446,4,0 +MT 13730 . G A, . base_quality;t_lod CONTQ=93;DP=4614;ECNT=23;MBQ=28,7,0;MFRL=329,364,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.216e+00,-3.355e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4474,4,0:2.931e-04,2.212e-04:4478:2019,3,0:2455,1,0 +MT 13731 . A C, . base_quality;t_lod CONTQ=93;DP=4616;ECNT=23;MBQ=28,7,0;MFRL=329,319,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.335e+00,-3.354e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4460,17,0:2.312e-04,2.215e-04:4477:2014,13,0:2446,4,0 MT 13732 . T . . END=13742 GT:DP:MIN_DP:TLOD 0/0:4534:4506:-3.656e+00 -MT 13743 . T C, . base_quality;t_lod CONTQ=93;DP=4679;ECNT=23;MBQ=29,9,0;MFRL=332,356,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.871e-03;SAPP=8.377e-04,1.891e-04,0.999;TLOD=-3.080e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4515,13,0:3.830e-04,2.185e-04:4528:2006,5,0:2509,8,0 +MT 13743 . T C, . base_quality;t_lod CONTQ=93;DP=4679;ECNT=23;MBQ=29,9,0;MFRL=332,356,0;MMQ=60,60,0;MPOS=17,0;POPAF=7.30,7.30;TLOD=-3.080e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4515,13,0:3.830e-04,2.185e-04:4528:2006,5,0:2509,8,0 MT 13744 . A . . END=13746 GT:DP:MIN_DP:TLOD 0/0:4559:4555:-3.648e+00 -MT 13747 . A C, . base_quality;t_lod CONTQ=93;DP=4719;ECNT=23;MBQ=28,8,0;MFRL=332,378,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.474e-03;SAPP=1.805e-04,5.398e-03,0.994;TLOD=-3.314e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4542,25,0:2.438e-04,2.173e-04:4567:2004,17,0:2538,8,0 +MT 13747 . A C, . base_quality;t_lod CONTQ=93;DP=4719;ECNT=23;MBQ=28,8,0;MFRL=332,378,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.314e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4542,25,0:2.438e-04,2.173e-04:4567:2004,17,0:2538,8,0 MT 13748 . A . . END=13749 GT:DP:MIN_DP:TLOD 0/0:4537:4534:-3.663e+00 -MT 13750 . A C, . base_quality;t_lod CONTQ=93;DP=4721;ECNT=23;MBQ=28,8,0;MFRL=331,341,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.013;SAPP=1.461e-04,0.204,0.796;TLOD=-3.028e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4511,60,0:4.774e-04,2.188e-04:4571:1985,26,0:2526,34,0 -MT 13751 . T A,C, . base_quality;t_lod CONTQ=93;DP=4719;ECNT=23;MBQ=28,12,6,0;MFRL=331,688,319,0;MMQ=60,60,60,0;MPOS=33,12,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,7.881e-03;SAPP=6.897e-03,1.836e-04,0.993;TLOD=-3.185e+00,-3.166e+00,-3.186e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4532,2,36,0:2.176e-04,2.276e-04,2.173e-04:4570:1985,1,20,0:2547,1,16,0 -MT 13752 . T C, . base_quality;t_lod CONTQ=93;DP=4714;ECNT=23;MBQ=28,7,0;MFRL=332,347,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.313e-03;SAPP=2.487e-04,3.389e-03,0.996;TLOD=-3.271e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4533,38,0:2.676e-04,2.186e-04:4571:1998,16,0:2535,22,0 -MT 13753 . T A, . base_quality;t_lod CONTQ=93;DP=4719;ECNT=23;MBQ=27,13,0;MFRL=332,326,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.332e-03;SAPP=1.141e-04,1.375e-03,0.999;TLOD=-3.354e+00,-3.356e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4499,6,0:2.216e-04,2.202e-04:4505:1963,5,0:2536,1,0 -MT 13754 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4723;ECNT=23;MBQ=28,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=1.137e-04,4.933e-05,1.000;TLOD=-3.365e+00,-3.365e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4576,0,0:2.158e-04,2.158e-04:4576:2010,0,0:2566,0,0 +MT 13750 . A C, . base_quality;t_lod CONTQ=93;DP=4721;ECNT=23;MBQ=28,8,0;MFRL=331,341,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.028e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4511,60,0:4.774e-04,2.188e-04:4571:1985,26,0:2526,34,0 +MT 13751 . T A,C, . base_quality;t_lod CONTQ=93;DP=4719;ECNT=23;MBQ=28,12,6,0;MFRL=331,688,319,0;MMQ=60,60,60,0;MPOS=33,12,0;POPAF=7.30,7.30,7.30;TLOD=-3.185e+00,-3.166e+00,-3.186e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4532,2,36,0:2.176e-04,2.276e-04,2.173e-04:4570:1985,1,20,0:2547,1,16,0 +MT 13752 . T C, . base_quality;t_lod CONTQ=93;DP=4714;ECNT=23;MBQ=28,7,0;MFRL=332,347,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.271e+00,-3.359e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4533,38,0:2.676e-04,2.186e-04:4571:1998,16,0:2535,22,0 +MT 13753 . T A, . base_quality;t_lod CONTQ=93;DP=4719;ECNT=23;MBQ=27,13,0;MFRL=332,326,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.354e+00,-3.356e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4499,6,0:2.216e-04,2.202e-04:4505:1963,5,0:2536,1,0 +MT 13754 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4723;ECNT=23;MBQ=28,0,0;MFRL=332,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.365e+00,-3.365e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4576,0,0:2.158e-04,2.158e-04:4576:2010,0,0:2566,0,0 MT 13755 . C . . END=13758 GT:DP:MIN_DP:TLOD 0/0:4613:4607:-3.665e+00 -MT 13759 . G C, . base_quality;t_lod CONTQ=93;DP=4760;ECNT=23;MBQ=27,4,0;MFRL=332,335,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.010;SAPP=1.000,3.696e-10,4.760e-06;TLOD=-3.150e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4529,48,0:3.429e-04,2.174e-04:4577:1981,23,0:2548,25,0 +MT 13759 . G C, . base_quality;t_lod CONTQ=93;DP=4760;ECNT=23;MBQ=27,4,0;MFRL=332,335,0;MMQ=60,60,0;MPOS=9,0;POPAF=7.30,7.30;TLOD=-3.150e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4529,48,0:3.429e-04,2.174e-04:4577:1981,23,0:2548,25,0 MT 13760 . C . . END=13760 GT:DP:MIN_DP:TLOD 0/0:4566:4566:-3.663e+00 -MT 13761 . A C, . base_quality;t_lod CONTQ=93;DP=4756;ECNT=23;MBQ=28,5,0;MFRL=331,349,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.022;SAPP=1.00,0.00,1.107e-17;TLOD=-2.532e+00,-3.360e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4498,103,0:9.868e-04,2.185e-04:4601:1939,63,0:2559,40,0 -MT 13762 . T A,C, . base_quality;t_lod CONTQ=93;DP=4769;ECNT=23;MBQ=27,2,4,0;MFRL=332,439,339,0;MMQ=60,60,60,0;MPOS=9,11,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.020,0.021;SAPP=0.997,4.338e-07,3.156e-03;TLOD=-3.180e+00,-3.124e+00,-3.183e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4464,7,96,0:2.203e-04,2.533e-04,2.187e-04:4567:1926,4,49,0:2538,3,47,0 -MT 13763 . C A, . base_quality;t_lod CONTQ=93;DP=4789;ECNT=23;MBQ=28,11,0;MFRL=332,428,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.296e-03;SAPP=6.183e-04,1.205e-04,0.999;TLOD=-3.367e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4625,6,0:2.149e-04,2.136e-04:4631:2002,2,0:2623,4,0 -MT 13764 . C A, . base_quality;t_lod CONTQ=93;DP=4797;ECNT=23;MBQ=28,14,0;MFRL=332,402,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.291e-03;SAPP=9.490e-03,6.291e-05,0.990;TLOD=-3.142e+00,-3.371e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4642,6,0:3.436e-04,2.128e-04:4648:2019,3,0:2623,3,0 +MT 13761 . A C, . base_quality;t_lod CONTQ=93;DP=4756;ECNT=23;MBQ=28,5,0;MFRL=331,349,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-2.532e+00,-3.360e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4498,103,0:9.868e-04,2.185e-04:4601:1939,63,0:2559,40,0 +MT 13762 . T A,C, . base_quality;t_lod CONTQ=93;DP=4769;ECNT=23;MBQ=27,2,4,0;MFRL=332,439,339,0;MMQ=60,60,60,0;MPOS=9,11,0;POPAF=7.30,7.30,7.30;TLOD=-3.180e+00,-3.124e+00,-3.183e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4464,7,96,0:2.203e-04,2.533e-04,2.187e-04:4567:1926,4,49,0:2538,3,47,0 +MT 13763 . C A, . base_quality;t_lod CONTQ=93;DP=4789;ECNT=23;MBQ=28,11,0;MFRL=332,428,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.367e+00,-3.369e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4625,6,0:2.149e-04,2.136e-04:4631:2002,2,0:2623,4,0 +MT 13764 . C A, . base_quality;t_lod CONTQ=93;DP=4797;ECNT=23;MBQ=28,14,0;MFRL=332,402,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.142e+00,-3.371e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4642,6,0:3.436e-04,2.128e-04:4648:2019,3,0:2623,3,0 MT 13765 . C . . END=13767 GT:DP:MIN_DP:TLOD 0/0:4624:4615:-3.666e+00 -MT 13768 . T C, . base_quality;t_lod CONTQ=93;DP=4779;ECNT=23;MBQ=28,5,0;MFRL=331,350,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.012;SAPP=1.000,2.697e-18,4.399e-14;TLOD=-3.215e+00,-3.363e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4530,55,0:3.158e-04,2.168e-04:4585:1960,30,0:2570,25,0 +MT 13768 . T C, . base_quality;t_lod CONTQ=93;DP=4779;ECNT=23;MBQ=28,5,0;MFRL=331,350,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.215e+00,-3.363e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4530,55,0:3.158e-04,2.168e-04:4585:1960,30,0:2570,25,0 MT 13769 . T . . END=13769 GT:DP:MIN_DP:TLOD 0/0:4513:4513:-3.418e+00 MT 13770 . C . . END=13771 GT:DP:MIN_DP:TLOD 0/0:4566:4555:-3.597e+00 -MT 13772 . A C, . base_quality;t_lod CONTQ=93;DP=4765;ECNT=23;MBQ=28,7,0;MFRL=331,362,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.368e-03;SAPP=1.000,1.472e-12,2.228e-08;TLOD=-3.211e+00,-3.364e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4547,43,0:3.145e-04,2.162e-04:4590:1967,24,0:2580,19,0 +MT 13772 . A C, . base_quality;t_lod CONTQ=93;DP=4765;ECNT=23;MBQ=28,7,0;MFRL=331,362,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.211e+00,-3.364e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4547,43,0:3.145e-04,2.162e-04:4590:1967,24,0:2580,19,0 MT 13773 . A . . END=13773 GT:DP:MIN_DP:TLOD 0/0:4548:4548:-2.939e+00 MT 13774 . A . . END=13775 GT:DP:MIN_DP:TLOD 0/0:4551:4543:-3.659e+00 -MT 13776 . A C, . base_quality;t_lod CONTQ=93;DP=4775;ECNT=23;MBQ=28,8,0;MFRL=331,332,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.672e-03;SAPP=6.873e-04,3.857e-04,0.999;TLOD=-3.328e+00,-3.368e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4615,31,0:2.360e-04,2.143e-04:4646:2007,16,0:2608,15,0 +MT 13776 . A C, . base_quality;t_lod CONTQ=93;DP=4775;ECNT=23;MBQ=28,8,0;MFRL=331,332,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.328e+00,-3.368e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4615,31,0:2.360e-04,2.143e-04:4646:2007,16,0:2608,15,0 MT 13777 . A . . END=13777 GT:DP:MIN_DP:TLOD 0/0:4559:4559:-3.474e+00 MT 13778 . C . . END=13778 GT:DP:MIN_DP:TLOD 0/0:4550:4550:-3.511e+00 -MT 13779 . A C, . base_quality;t_lod CONTQ=93;DP=4771;ECNT=23;MBQ=28,7,0;MFRL=331,334,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.211e-03;SAPP=1.042e-03,3.249e-04,0.999;TLOD=-3.236e+00,-3.366e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4590,38,0:2.922e-04,2.154e-04:4628:1975,22,0:2615,16,0 +MT 13779 . A C, . base_quality;t_lod CONTQ=93;DP=4771;ECNT=23;MBQ=28,7,0;MFRL=331,334,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.236e+00,-3.366e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4590,38,0:2.922e-04,2.154e-04:4628:1975,22,0:2615,16,0 MT 13780 . A . . END=13780 GT:DP:MIN_DP:TLOD 0/0:4550:4550:-3.468e+00 -MT 13781 . T A,C, . base_quality;t_lod CONTQ=93;DP=4756;ECNT=23;MBQ=27,13,5,0;MFRL=330,383,356,0;MMQ=60,60,60,0;MPOS=22,30,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,9.620e-03;SAPP=3.147e-03,2.488e-04,0.997;TLOD=-3.159e+00,-3.068e+00,-3.186e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4530,14,44,0:2.316e-04,2.844e-04,2.174e-04:4588:1952,8,19,0:2578,6,25,0 +MT 13781 . T A,C, . base_quality;t_lod CONTQ=93;DP=4756;ECNT=23;MBQ=27,13,5,0;MFRL=330,383,356,0;MMQ=60,60,60,0;MPOS=22,30,0;POPAF=7.30,7.30,7.30;TLOD=-3.159e+00,-3.068e+00,-3.186e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:4530,14,44,0:2.316e-04,2.844e-04,2.174e-04:4588:1952,8,19,0:2578,6,25,0 MT 13782 . C . . END=13782 GT:DP:MIN_DP:TLOD 0/0:4620:4620:-3.642e+00 MT 13783 . C . . END=13783 GT:DP:MIN_DP:TLOD 0/0:4644:4644:-3.349e+00 MT 13784 . C . . END=13786 GT:DP:MIN_DP:TLOD 0/0:4657:4656:-3.671e+00 -MT 13787 . T C, . base_quality;t_lod CONTQ=93;DP=4789;ECNT=23;MBQ=28,5,0;MFRL=330,344,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.020,0.016;SAPP=1.00,0.00,0.00;TLOD=-3.191e+00,-3.364e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4538,73,0:3.368e-04,2.164e-04:4611:1939,45,0:2599,28,0 +MT 13787 . T C, . base_quality;t_lod CONTQ=93;DP=4789;ECNT=23;MBQ=28,5,0;MFRL=330,344,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.191e+00,-3.364e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4538,73,0:3.368e-04,2.164e-04:4611:1939,45,0:2599,28,0 MT 13788 . C . . END=13789 GT:DP:MIN_DP:TLOD 0/0:4660:4653:-3.652e+00 -MT 13790 . A C, . base_quality;t_lod CONTQ=93;DP=4828;ECNT=23;MBQ=28,7,0;MFRL=330,331,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.010;SAPP=0.016,1.744e-04,0.984;TLOD=-3.286e+00,-3.371e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4638,48,0:2.620e-04,2.129e-04:4686:1992,28,0:2646,20,0 +MT 13790 . A C, . base_quality;t_lod CONTQ=93;DP=4828;ECNT=23;MBQ=28,7,0;MFRL=330,331,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.286e+00,-3.371e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4638,48,0:2.620e-04,2.129e-04:4686:1992,28,0:2646,20,0 MT 13791 . C . . END=13795 GT:DP:MIN_DP:TLOD 0/0:4738:4688:-3.673e+00 -MT 13796 . A C, . base_quality;t_lod CONTQ=93;DP=4910;ECNT=23;MBQ=28,7,0;MFRL=329,331,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.013;SAPP=4.120e-04,1.322e-03,0.998;TLOD=-3.262e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4708,64,0:2.785e-04,2.100e-04:4772:2013,39,0:2695,25,0 -MT 13797 . A C, . base_quality;t_lod CONTQ=93;DP=4930;ECNT=23;MBQ=27,7,0;MFRL=329,332,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.018;SAPP=2.662e-05,0.825,0.175;TLOD=-2.779e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4713,87,0:7.408e-04,2.098e-04:4800:2019,41,0:2694,46,0 +MT 13796 . A C, . base_quality;t_lod CONTQ=93;DP=4910;ECNT=23;MBQ=28,7,0;MFRL=329,331,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.262e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4708,64,0:2.785e-04,2.100e-04:4772:2013,39,0:2695,25,0 +MT 13797 . A C, . base_quality;t_lod CONTQ=93;DP=4930;ECNT=23;MBQ=27,7,0;MFRL=329,332,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-2.779e+00,-3.377e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4713,87,0:7.408e-04,2.098e-04:4800:2019,41,0:2694,46,0 MT 13798 . C . . END=13798 GT:DP:MIN_DP:TLOD 0/0:5910:5910:-3.634e+00 MT 13799 . T . . END=13799 GT:DP:MIN_DP:TLOD 0/0:5915:5915:-2.766e+00 MT 13800 . C . . END=13800 GT:DP:MIN_DP:TLOD 0/0:5999:5999:-3.724e+00 @@ -5463,55 +5461,55 @@ MT 13988 . T . . END=13988 GT:DP:MIN_DP:TLOD 0/0:7029:7029:-3.208e+00 MT 13989 . C . . END=13993 GT:DP:MIN_DP:TLOD 0/0:7153:7109:-3.785e+00 MT 13994 . T . . END=13994 GT:DP:MIN_DP:TLOD 0/0:7083:7083:-3.480e+00 MT 13995 . A . . END=14000 GT:DP:MIN_DP:TLOD 0/0:7045:6993:-3.800e+00 -MT 14001 . A C, . base_quality;t_lod CONTQ=93;DP=6194;ECNT=26;MBQ=29,8,0;MFRL=330,349,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.812e-03;SAPP=4.041e-05,0.459,0.541;TLOD=-3.426e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5998,29,0:1.882e-04,1.650e-04:6027:2901,17,0:3097,12,0 +MT 14001 . A C, . base_quality;t_lod CONTQ=93;DP=6194;ECNT=26;MBQ=29,8,0;MFRL=330,349,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.426e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5998,29,0:1.882e-04,1.650e-04:6027:2901,17,0:3097,12,0 MT 14002 . A . . END=14002 GT:DP:MIN_DP:TLOD 0/0:6158:6158:-3.355e+00 MT 14003 . C . . END=14003 GT:DP:MIN_DP:TLOD 0/0:6176:6176:-3.777e+00 -MT 14004 . C A, . base_quality;t_lod CONTQ=93;DP=6185;ECNT=26;MBQ=28,13,0;MFRL=330,392,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.976e-04;SAPP=9.130e-05,1.727e-04,1.000;TLOD=-3.355e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6026,3,0:2.137e-04,1.642e-04:6029:2902,0,0:3124,3,0 +MT 14004 . C A, . base_quality;t_lod CONTQ=93;DP=6185;ECNT=26;MBQ=28,13,0;MFRL=330,392,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;TLOD=-3.355e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6026,3,0:2.137e-04,1.642e-04:6029:2902,0,0:3124,3,0 MT 14005 . T . . END=14009 GT:DP:MIN_DP:TLOD 0/0:6170:6155:-3.785e+00 -MT 14010 . A C, . base_quality;t_lod CONTQ=93;DP=6159;ECNT=26;MBQ=29,10,0;MFRL=329,338,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.170e-03;SAPP=3.572e-03,8.423e-05,0.996;TLOD=-3.457e+00,-3.481e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5979,13,0:1.748e-04,1.653e-04:5992:2879,8,0:3100,5,0 +MT 14010 . A C, . base_quality;t_lod CONTQ=93;DP=6159;ECNT=26;MBQ=29,10,0;MFRL=329,338,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.457e+00,-3.481e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5979,13,0:1.748e-04,1.653e-04:5992:2879,8,0:3100,5,0 MT 14011 . G . . END=14015 GT:DP:MIN_DP:TLOD 0/0:6171:6151:-3.781e+00 -MT 14016 . G T, . base_quality;t_lod CONTQ=93;DP=6178;ECNT=26;MBQ=28,12,0;MFRL=329,328,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.164e-03;SAPP=2.778e-04,1.413e-04,1.000;TLOD=-3.475e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6007,7,0:1.677e-04,1.648e-04:6014:2891,4,0:3116,3,0 +MT 14016 . G T, . base_quality;t_lod CONTQ=93;DP=6178;ECNT=26;MBQ=28,12,0;MFRL=329,328,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6007,7,0:1.677e-04,1.648e-04:6014:2891,4,0:3116,3,0 MT 14017 . C . . END=14025 GT:DP:MIN_DP:TLOD 0/0:6152:6136:-3.776e+00 -MT 14026 . A C, . base_quality;t_lod CONTQ=93;DP=6208;ECNT=26;MBQ=29,8,0;MFRL=328,417,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.479e-03;SAPP=2.314e-04,3.324e-04,0.999;TLOD=-3.434e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6035,15,0:1.847e-04,1.640e-04:6050:2905,3,0:3130,12,0 -MT 14027 . A C, . base_quality;t_lod CONTQ=93;DP=6214;ECNT=26;MBQ=28,8,0;MFRL=328,352,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.637e-03;SAPP=8.032e-05,0.068,0.932;TLOD=-3.374e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6011,28,0:2.135e-04,1.644e-04:6039:2878,16,0:3133,12,0 +MT 14026 . A C, . base_quality;t_lod CONTQ=93;DP=6208;ECNT=26;MBQ=29,8,0;MFRL=328,417,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.434e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6035,15,0:1.847e-04,1.640e-04:6050:2905,3,0:3130,12,0 +MT 14027 . A C, . base_quality;t_lod CONTQ=93;DP=6214;ECNT=26;MBQ=28,8,0;MFRL=328,352,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.374e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6011,28,0:2.135e-04,1.644e-04:6039:2878,16,0:3133,12,0 MT 14028 . A . . END=14031 GT:DP:MIN_DP:TLOD 0/0:6181:6177:-3.768e+00 -MT 14032 . A C,T, . base_quality;t_lod CONTQ=93;DP=6228;ECNT=26;MBQ=28,7,12,0;MFRL=328,365,314,0;MMQ=60,60,60,0;MPOS=20,29,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,6.427e-03;SAPP=2.529e-04,9.430e-04,0.999;TLOD=-3.176e+00,-3.308e+00,-3.308e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6029,39,1,0:2.242e-04,1.640e-04,1.639e-04:6069:2906,14,0,0:3123,25,1,0 +MT 14032 . A C,T, . base_quality;t_lod CONTQ=93;DP=6228;ECNT=26;MBQ=28,7,12,0;MFRL=328,365,314,0;MMQ=60,60,60,0;MPOS=20,29,0;POPAF=7.30,7.30,7.30;TLOD=-3.176e+00,-3.308e+00,-3.308e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6029,39,1,0:2.242e-04,1.640e-04,1.639e-04:6069:2906,14,0,0:3123,25,1,0 MT 14033 . T . . END=14034 GT:DP:MIN_DP:TLOD 0/0:6130:6123:-3.769e+00 -MT 14035 . T G, . base_quality;t_lod CONTQ=93;DP=6222;ECNT=26;MBQ=28,7,0;MFRL=327,429,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.495e-03;SAPP=1.546e-04,2.599e-04,1.000;TLOD=-3.415e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6013,9,0:1.919e-04,1.644e-04:6022:2888,5,0:3125,4,0 +MT 14035 . T G, . base_quality;t_lod CONTQ=93;DP=6222;ECNT=26;MBQ=28,7,0;MFRL=327,429,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.415e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6013,9,0:1.919e-04,1.644e-04:6022:2888,5,0:3125,4,0 MT 14036 . C . . END=14038 GT:DP:MIN_DP:TLOD 0/0:6160:6152:-3.750e+00 -MT 14039 . A C, . base_quality;t_lod CONTQ=93;DP=6209;ECNT=26;MBQ=29,3,0;MFRL=327,404,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.653e-03;SAPP=9.161e-05,4.024e-03,0.996;TLOD=-3.478e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6015,16,0:1.662e-04,1.642e-04:6031:2874,6,0:3141,10,0 +MT 14039 . A C, . base_quality;t_lod CONTQ=93;DP=6209;ECNT=26;MBQ=29,3,0;MFRL=327,404,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.478e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6015,16,0:1.662e-04,1.642e-04:6031:2874,6,0:3141,10,0 MT 14040 . G . . END=14043 GT:DP:MIN_DP:TLOD 0/0:6157:6103:-3.787e+00 -MT 14044 . C T, . base_quality;t_lod CONTQ=93;DP=6219;ECNT=26;MBQ=28,10,0;MFRL=327,307,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.607e-04;SAPP=1.291e-04,1.299e-04,1.000;TLOD=-3.405e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6050,4,0:1.953e-04,1.636e-04:6054:2887,2,0:3163,2,0 +MT 14044 . C T, . base_quality;t_lod CONTQ=93;DP=6219;ECNT=26;MBQ=28,10,0;MFRL=327,307,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.405e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6050,4,0:1.953e-04,1.636e-04:6054:2887,2,0:3163,2,0 MT 14045 . A . . END=14045 GT:DP:MIN_DP:TLOD 0/0:6158:6158:-3.684e+00 -MT 14046 . A C,G, . base_quality;t_lod CONTQ=93;DP=6213;ECNT=26;MBQ=28,8,7,0;MFRL=327,372,346,0;MMQ=60,60,60,0;MPOS=18,39,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,7.937e-03;SAPP=1.316e-04,0.013,0.987;TLOD=-3.217e+00,-3.223e+00,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6000,48,8,0:2.041e-04,1.980e-04,1.648e-04:6056:2859,21,6,0:3141,27,2,0 -MT 14047 . A T, . base_quality;t_lod CONTQ=93;DP=6226;ECNT=26;MBQ=28,11,0;MFRL=327,348,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.991e-04;SAPP=1.899e-04,8.580e-05,1.000;TLOD=-3.481e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6008,3,0:1.652e-04,1.648e-04:6011:2880,0,0:3128,3,0 +MT 14046 . A C,G, . base_quality;t_lod CONTQ=93;DP=6213;ECNT=26;MBQ=28,8,7,0;MFRL=327,372,346,0;MMQ=60,60,60,0;MPOS=18,39,0;POPAF=7.30,7.30,7.30;TLOD=-3.217e+00,-3.223e+00,-3.306e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6000,48,8,0:2.041e-04,1.980e-04,1.648e-04:6056:2859,21,6,0:3141,27,2,0 +MT 14047 . A T, . base_quality;t_lod CONTQ=93;DP=6226;ECNT=26;MBQ=28,11,0;MFRL=327,348,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.481e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6008,3,0:1.652e-04,1.648e-04:6011:2880,0,0:3128,3,0 MT 14048 . T . . END=14048 GT:DP:MIN_DP:TLOD 0/0:6093:6093:-3.274e+00 MT 14049 . C . . END=14049 GT:DP:MIN_DP:TLOD 0/0:6137:6137:-3.687e+00 -MT 14050 . T A, . base_quality;t_lod CONTQ=93;DP=6217;ECNT=26;MBQ=28,13,0;MFRL=327,355,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.162e-03;SAPP=9.400e-05,5.987e-04,0.999;TLOD=-3.480e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6016,7,0:1.657e-04,1.645e-04:6023:2862,4,0:3154,3,0 +MT 14050 . T A, . base_quality;t_lod CONTQ=93;DP=6217;ECNT=26;MBQ=28,13,0;MFRL=327,355,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.483e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6016,7,0:1.657e-04,1.645e-04:6023:2862,4,0:3154,3,0 MT 14051 . C . . END=14052 GT:DP:MIN_DP:TLOD 0/0:6147:6144:-3.784e+00 -MT 14053 . A C,G, . base_quality;t_lod CONTQ=93;DP=6204;ECNT=26;MBQ=28,5,4,0;MFRL=326,348,340,0;MMQ=60,60,60,0;MPOS=19,36,0;POPAF=7.30,7.30,7.30;SAAF=0.020,0.010,0.017;SAPP=3.873e-09,1.000,4.203e-05;TLOD=-3.038e+00,-3.232e+00,-3.301e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5897,104,11,0:3.092e-04,1.957e-04,1.666e-04:6012:2818,40,7,0:3079,64,4,0 +MT 14053 . A C,G, . base_quality;t_lod CONTQ=93;DP=6204;ECNT=26;MBQ=28,5,4,0;MFRL=326,348,340,0;MMQ=60,60,60,0;MPOS=19,36,0;POPAF=7.30,7.30,7.30;TLOD=-3.038e+00,-3.232e+00,-3.301e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5897,104,11,0:3.092e-04,1.957e-04,1.666e-04:6012:2818,40,7,0:3079,64,4,0 MT 14054 . C . . END=14054 GT:DP:MIN_DP:TLOD 0/0:6119:6119:-3.780e+00 -MT 14055 . C A, . base_quality;t_lod CONTQ=93;DP=6223;ECNT=26;MBQ=28,18,0;MFRL=326,318,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.906e-04;SAPP=1.003e-03,7.172e-05,0.999;TLOD=-3.355e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6051,6,0:2.202e-04,1.636e-04:6057:2870,4,0:3181,2,0 +MT 14055 . C A, . base_quality;t_lod CONTQ=93;DP=6223;ECNT=26;MBQ=28,18,0;MFRL=326,318,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=-3.355e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6051,6,0:2.202e-04,1.636e-04:6057:2870,4,0:3181,2,0 MT 14056 . T . . END=14058 GT:DP:MIN_DP:TLOD 0/0:6138:6116:-3.784e+00 -MT 14059 . A C, . base_quality;t_lod CONTQ=93;DP=6194;ECNT=26;MBQ=28,9,0;MFRL=326,359,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.309e-03;SAPP=1.019e-04,0.017,0.983;TLOD=-3.333e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5995,32,0:2.391e-04,1.650e-04:6027:2829,15,0:3166,17,0 -MT 14060 . T A, . base_quality;t_lod CONTQ=93;DP=6192;ECNT=26;MBQ=28,12,0;MFRL=326,448,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.330e-03;SAPP=1.940e-04,2.004e-04,1.000;TLOD=-3.455e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6005,8,0:1.755e-04,1.648e-04:6013:2832,4,0:3173,4,0 -MT 14061 . C A, . base_quality;t_lod CONTQ=93;DP=6183;ECNT=26;MBQ=28,10,0;MFRL=326,276,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;SAAF=0.00,0.010,6.616e-04;SAPP=1.445e-03,5.253e-05,0.999;TLOD=-3.482e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6042,4,0:1.646e-04,1.641e-04:6046:2838,0,0:3204,4,0 +MT 14059 . A C, . base_quality;t_lod CONTQ=93;DP=6194;ECNT=26;MBQ=28,9,0;MFRL=326,359,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.333e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5995,32,0:2.391e-04,1.650e-04:6027:2829,15,0:3166,17,0 +MT 14060 . T A, . base_quality;t_lod CONTQ=93;DP=6192;ECNT=26;MBQ=28,12,0;MFRL=326,448,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.455e+00,-3.482e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6005,8,0:1.755e-04,1.648e-04:6013:2832,4,0:3173,4,0 +MT 14061 . C A, . base_quality;t_lod CONTQ=93;DP=6183;ECNT=26;MBQ=28,10,0;MFRL=326,276,0;MMQ=60,60,0;MPOS=8,0;POPAF=7.30,7.30;TLOD=-3.482e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6042,4,0:1.646e-04,1.641e-04:6046:2838,0,0:3204,4,0 MT 14062 . A . . END=14062 GT:DP:MIN_DP:TLOD 0/0:6110:6110:-3.758e+00 -MT 14063 . T A, . base_quality;t_lod CONTQ=93;DP=6166;ECNT=26;MBQ=28,2,0;MFRL=326,387,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.314e-04;SAPP=1.123e-04,2.168e-04,1.000;TLOD=-3.480e+00,-3.481e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6009,5,0:1.656e-04,1.650e-04:6014:2814,1,0:3195,4,0 +MT 14063 . T A, . base_quality;t_lod CONTQ=93;DP=6166;ECNT=26;MBQ=28,2,0;MFRL=326,387,0;MMQ=60,60,0;MPOS=6,0;POPAF=7.30,7.30;TLOD=-3.480e+00,-3.481e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6009,5,0:1.656e-04,1.650e-04:6014:2814,1,0:3195,4,0 MT 14064 . C . . END=14064 GT:DP:MIN_DP:TLOD 0/0:6113:6113:-3.737e+00 -MT 14065 . A C, . base_quality;t_lod CONTQ=93;DP=6148;ECNT=26;MBQ=28,7,0;MFRL=326,322,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.016e-03;SAPP=8.905e-05,0.089,0.911;TLOD=-3.362e+00,-3.478e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5948,36,0:2.207e-04,1.663e-04:5984:2782,15,0:3166,21,0 +MT 14065 . A C, . base_quality;t_lod CONTQ=93;DP=6148;ECNT=26;MBQ=28,7,0;MFRL=326,322,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.362e+00,-3.478e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5948,36,0:2.207e-04,1.663e-04:5984:2782,15,0:3166,21,0 MT 14066 . C . . END=14070 GT:DP:MIN_DP:TLOD 0/0:6128:6114:-3.763e+00 -MT 14071 . A C, . base_quality;t_lod CONTQ=93;DP=6141;ECNT=26;MBQ=28,7,0;MFRL=326,371,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.199e-03;SAPP=4.601e-06,0.940,0.060;TLOD=-3.447e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5930,43,0:1.791e-04,1.666e-04:5973:2765,18,0:3165,25,0 +MT 14071 . A C, . base_quality;t_lod CONTQ=93;DP=6141;ECNT=26;MBQ=28,7,0;MFRL=326,371,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.447e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5930,43,0:1.791e-04,1.666e-04:5973:2765,18,0:3165,25,0 MT 14072 . C . . END=14072 GT:DP:MIN_DP:TLOD 0/0:6128:6128:-3.780e+00 -MT 14073 . C A, . base_quality;t_lod CONTQ=93;DP=6149;ECNT=26;MBQ=28,12,0;MFRL=326,275,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.503e-03;SAPP=1.014e-04,5.970e-04,0.999;TLOD=-3.370e+00,-3.480e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5979,9,0:2.120e-04,1.654e-04:5988:2784,3,0:3195,6,0 +MT 14073 . C A, . base_quality;t_lod CONTQ=93;DP=6149;ECNT=26;MBQ=28,12,0;MFRL=326,275,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.370e+00,-3.480e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5979,9,0:2.120e-04,1.654e-04:5988:2784,3,0:3195,6,0 MT 14074 . C . . END=14075 GT:DP:MIN_DP:TLOD 0/0:6119:6111:-3.783e+00 -MT 14076 . A C, . base_quality;t_lod CONTQ=93;DP=6149;ECNT=26;MBQ=28,7,0;MFRL=326,339,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.012e-03;SAPP=1.762e-04,4.923e-04,0.999;TLOD=-3.335e+00,-3.479e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5958,18,0:2.323e-04,1.659e-04:5976:2757,9,0:3201,9,0 +MT 14076 . A C, . base_quality;t_lod CONTQ=93;DP=6149;ECNT=26;MBQ=28,7,0;MFRL=326,339,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.335e+00,-3.479e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5958,18,0:2.323e-04,1.659e-04:5976:2757,9,0:3201,9,0 MT 14077 . A . . END=14077 GT:DP:MIN_DP:TLOD 0/0:6085:6085:-3.493e+00 -MT 14078 . A C, . base_quality;t_lod CONTQ=93;DP=6124;ECNT=26;MBQ=28,8,0;MFRL=326,327,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.026e-03;SAPP=7.502e-05,0.075,0.925;TLOD=-3.468e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5937,24,0:1.703e-04,1.666e-04:5961:2729,11,0:3208,13,0 +MT 14078 . A C, . base_quality;t_lod CONTQ=93;DP=6124;ECNT=26;MBQ=28,8,0;MFRL=326,327,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.468e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5937,24,0:1.703e-04,1.666e-04:5961:2729,11,0:3208,13,0 MT 14079 . A . . END=14079 GT:DP:MIN_DP:TLOD 0/0:6047:6047:-3.677e+00 -MT 14080 . G T, . base_quality;t_lod CONTQ=93;DP=6118;ECNT=26;MBQ=28,13,0;MFRL=326,349,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.851e-03;SAPP=1.549e-04,3.185e-04,1.000;TLOD=-3.442e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5931,11,0:1.809e-04,1.668e-04:5942:2731,8,0:3200,3,0 +MT 14080 . G T, . base_quality;t_lod CONTQ=93;DP=6118;ECNT=26;MBQ=28,13,0;MFRL=326,349,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.442e+00,-3.477e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5931,11,0:1.809e-04,1.668e-04:5942:2731,8,0:3200,3,0 MT 14081 . G . . END=14087 GT:DP:MIN_DP:TLOD 0/0:6017:5970:-3.774e+00 -MT 14088 . T A,C, . base_quality;t_lod CONTQ=93;DP=6083;ECNT=26;MBQ=28,11,7,0;MFRL=328,273,328,0;MMQ=60,60,60,0;MPOS=36,23,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,3.559e-03;SAPP=0.045,7.751e-05,0.955;TLOD=-3.272e+00,-3.224e+00,-3.297e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5879,15,21,0:1.782e-04,1.986e-04,1.681e-04:5915:2724,7,4,0:3155,8,17,0 +MT 14088 . T A,C, . base_quality;t_lod CONTQ=93;DP=6083;ECNT=26;MBQ=28,11,7,0;MFRL=328,273,328,0;MMQ=60,60,60,0;MPOS=36,23,0;POPAF=7.30,7.30,7.30;TLOD=-3.272e+00,-3.224e+00,-3.297e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:5879,15,21,0:1.782e-04,1.986e-04,1.681e-04:5915:2724,7,4,0:3155,8,17,0 MT 14089 . A . . END=14089 GT:DP:MIN_DP:TLOD 0/0:6910:6910:-3.701e+00 MT 14090 . A . . END=14090 GT:DP:MIN_DP:TLOD 0/0:6891:6891:-3.103e+00 MT 14091 . A . . END=14091 GT:DP:MIN_DP:TLOD 0/0:6864:6864:-2.528e+00 @@ -5549,50 +5547,50 @@ MT 14162 . G . . END=14162 GT:DP:MIN_DP:TLOD 0/0:6799:6799:-3.442e+00 MT 14163 . C . . END=14166 GT:DP:MIN_DP:TLOD 0/0:6922:6872:-3.772e+00 MT 14167 . C . . END=14167 GT:DP:MIN_DP:TLOD 0/0:6990:6990:-3.285e+00 MT 14168 . T . . END=14175 GT:DP:MIN_DP:TLOD 0/0:7028:6993:-3.827e+00 -MT 14176 . A C, . base_quality;t_lod CONTQ=93;DP=6227;ECNT=22;MBQ=29,9,0;MFRL=333,325,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.311e-03;SAPP=1.811e-04,5.002e-04,0.999;TLOD=-3.337e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6020,20,0:2.272e-04,1.639e-04:6040:2908,11,0:3112,9,0 +MT 14176 . A C, . base_quality;t_lod CONTQ=93;DP=6227;ECNT=22;MBQ=29,9,0;MFRL=333,325,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.337e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6020,20,0:2.272e-04,1.639e-04:6040:2908,11,0:3112,9,0 MT 14177 . A . . END=14177 GT:DP:MIN_DP:TLOD 0/0:6193:6193:-3.664e+00 -MT 14178 . T C, . base_quality;t_lod CONTQ=93;DP=6221;ECNT=22;MBQ=29,8,0;MFRL=334,385,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.148e-03;SAPP=2.293e-04,2.621e-04,1.000;TLOD=-3.417e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6039,13,0:1.907e-04,1.639e-04:6052:2922,5,0:3117,8,0 +MT 14178 . T C, . base_quality;t_lod CONTQ=93;DP=6221;ECNT=22;MBQ=29,8,0;MFRL=334,385,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.417e+00,-3.484e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6039,13,0:1.907e-04,1.639e-04:6052:2922,5,0:3117,8,0 MT 14179 . A . . END=14182 GT:DP:MIN_DP:TLOD 0/0:6188:6185:-3.778e+00 -MT 14183 . A G, . base_quality;t_lod CONTQ=93;DP=6232;ECNT=22;MBQ=28,7,0;MFRL=334,323,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.653e-03;SAPP=2.163e-04,1.826e-04,1.000;TLOD=-3.380e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6038,10,0:2.050e-04,1.637e-04:6048:2923,7,0:3115,3,0 +MT 14183 . A G, . base_quality;t_lod CONTQ=93;DP=6232;ECNT=22;MBQ=28,7,0;MFRL=334,323,0;MMQ=60,60,0;MPOS=48,0;POPAF=7.30,7.30;TLOD=-3.380e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6038,10,0:2.050e-04,1.637e-04:6048:2923,7,0:3115,3,0 MT 14184 . C . . END=14185 GT:DP:MIN_DP:TLOD 0/0:6232:6224:-3.785e+00 MT 14186 . C . . END=14186 GT:DP:MIN_DP:TLOD 0/0:6259:6259:-3.458e+00 -MT 14187 . C A, . base_quality;t_lod CONTQ=93;DP=6256;ECNT=22;MBQ=28,13,0;MFRL=334,267,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.558e-04;SAPP=7.778e-05,2.927e-04,1.000;TLOD=-3.487e+00,-3.488e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6095,4,0:1.629e-04,1.625e-04:6099:2939,2,0:3156,2,0 +MT 14187 . C A, . base_quality;t_lod CONTQ=93;DP=6256;ECNT=22;MBQ=28,13,0;MFRL=334,267,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.487e+00,-3.488e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6095,4,0:1.629e-04,1.625e-04:6099:2939,2,0:3156,2,0 MT 14188 . A . . END=14191 GT:DP:MIN_DP:TLOD 0/0:6299:6284:-3.788e+00 -MT 14192 . A C, . base_quality;t_lod CONTQ=93;DP=6293;ECNT=22;MBQ=28,9,0;MFRL=334,329,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.717e-03;SAPP=1.244e-04,6.735e-03,0.993;TLOD=-3.386e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6087,35,0:2.078e-04,1.624e-04:6122:2913,21,0:3174,14,0 +MT 14192 . A C, . base_quality;t_lod CONTQ=93;DP=6293;ECNT=22;MBQ=28,9,0;MFRL=334,329,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.386e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6087,35,0:2.078e-04,1.624e-04:6122:2913,21,0:3174,14,0 MT 14193 . A . . END=14195 GT:DP:MIN_DP:TLOD 0/0:6297:6283:-3.796e+00 -MT 14196 . A C, . base_quality;t_lod CONTQ=93;DP=6322;ECNT=22;MBQ=28,8,0;MFRL=334,306,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.878e-03;SAPP=4.377e-05,0.408,0.592;TLOD=-3.332e+00,-3.491e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6120,30,0:2.350e-04,1.616e-04:6150:2928,13,0:3192,17,0 +MT 14196 . A C, . base_quality;t_lod CONTQ=93;DP=6322;ECNT=22;MBQ=28,8,0;MFRL=334,306,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.332e+00,-3.491e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6120,30,0:2.350e-04,1.616e-04:6150:2928,13,0:3192,17,0 MT 14197 . T . . END=14198 GT:DP:MIN_DP:TLOD 0/0:6238:6217:-3.785e+00 -MT 14199 . T A, . base_quality;t_lod CONTQ=93;DP=6332;ECNT=22;MBQ=28,13,0;MFRL=334,417,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.736e-04;SAPP=1.041e-03,6.924e-05,0.999;TLOD=-3.390e+00,-3.491e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6157,6,0:2.004e-04,1.612e-04:6163:2949,2,0:3208,4,0 +MT 14199 . T A, . base_quality;t_lod CONTQ=93;DP=6332;ECNT=22;MBQ=28,13,0;MFRL=334,417,0;MMQ=60,60,0;MPOS=47,0;POPAF=7.30,7.30;TLOD=-3.390e+00,-3.491e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6157,6,0:2.004e-04,1.612e-04:6163:2949,2,0:3208,4,0 MT 14200 . T . . END=14200 GT:DP:MIN_DP:TLOD 0/0:6294:6294:-3.769e+00 -MT 14201 . C A, . base_quality;t_lod CONTQ=93;DP=6356;ECNT=22;MBQ=28,11,0;MFRL=334,297,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.852e-04;SAPP=7.751e-04,5.106e-05,0.999;TLOD=-3.493e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6180,3,0:1.605e-04,1.602e-04:6183:2939,0,0:3241,3,0 +MT 14201 . C A, . base_quality;t_lod CONTQ=93;DP=6356;ECNT=22;MBQ=28,11,0;MFRL=334,297,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.493e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6180,3,0:1.605e-04,1.602e-04:6183:2939,0,0:3241,3,0 MT 14202 . A . . END=14202 GT:DP:MIN_DP:TLOD 0/0:6365:6365:-3.790e+00 -MT 14203 . A C, . base_quality;t_lod CONTQ=93;DP=6356;ECNT=22;MBQ=28,8,0;MFRL=334,370,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.223e-03;SAPP=6.164e-05,0.092,0.908;TLOD=-3.417e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6185,20,0:1.910e-04,1.600e-04:6205:2941,11,0:3244,9,0 -MT 14204 . C A, . base_quality;t_lod CONTQ=93;DP=6380;ECNT=22;MBQ=28,14,0;MFRL=334,269,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.040e-04;SAPP=5.163e-04,7.216e-05,0.999;TLOD=-3.291e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6214,5,0:2.470e-04,1.593e-04:6219:2960,1,0:3254,4,0 +MT 14203 . A C, . base_quality;t_lod CONTQ=93;DP=6356;ECNT=22;MBQ=28,8,0;MFRL=334,370,0;MMQ=60,60,0;MPOS=45,0;POPAF=7.30,7.30;TLOD=-3.417e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6185,20,0:1.910e-04,1.600e-04:6205:2941,11,0:3244,9,0 +MT 14204 . C A, . base_quality;t_lod CONTQ=93;DP=6380;ECNT=22;MBQ=28,14,0;MFRL=334,269,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.291e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6214,5,0:2.470e-04,1.593e-04:6219:2960,1,0:3254,4,0 MT 14205 . C . . END=14207 GT:DP:MIN_DP:TLOD 0/0:6369:6296:-3.787e+00 -MT 14208 . T A, . base_quality;t_lod CONTQ=93;DP=6431;ECNT=22;MBQ=28,13,0;MFRL=334,406,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.610e-03;SAPP=8.493e-03,6.097e-05,0.991;TLOD=-3.459e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6202,10,0:1.743e-04,1.593e-04:6212:2965,6,0:3237,4,0 +MT 14208 . T A, . base_quality;t_lod CONTQ=93;DP=6431;ECNT=22;MBQ=28,13,0;MFRL=334,406,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.459e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6202,10,0:1.743e-04,1.593e-04:6212:2965,6,0:3237,4,0 MT 14209 . A . . END=14209 GT:DP:MIN_DP:TLOD 0/0:6376:6376:-3.676e+00 -MT 14210 . A C, . base_quality;t_lod CONTQ=93;DP=6430;ECNT=22;MBQ=28,7,0;MFRL=334,345,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.886e-03;SAPP=9.083e-05,3.926e-03,0.996;TLOD=-3.474e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6218,18,0:1.679e-04,1.588e-04:6236:2966,8,0:3252,10,0 +MT 14210 . A C, . base_quality;t_lod CONTQ=93;DP=6430;ECNT=22;MBQ=28,7,0;MFRL=334,345,0;MMQ=60,60,0;MPOS=38,0;POPAF=7.30,7.30;TLOD=-3.474e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6218,18,0:1.679e-04,1.588e-04:6236:2966,8,0:3252,10,0 MT 14211 . C . . END=14211 GT:DP:MIN_DP:TLOD 0/0:6385:6385:-3.746e+00 -MT 14212 . T C, . PASS CONTQ=93;DP=6413;ECNT=22;MBQ=28,28,0;MFRL=326,334,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.996;SAPP=0.023,0.026,0.951;TLOD=20182.27,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:28,6218,0:0.996,1.586e-04:6246:11,2973,0:17,3245,0 -MT 14213 . A C, . base_quality;t_lod CONTQ=93;DP=6416;ECNT=22;MBQ=29,8,0;MFRL=334,329,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.247e-03;SAPP=1.274e-03,1.080e-04,0.999;TLOD=-3.394e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6216,14,0:2.033e-04,1.589e-04:6230:2965,8,0:3251,6,0 +MT 14212 . T C, . PASS CONTQ=93;DP=6413;ECNT=22;MBQ=28,28,0;MFRL=326,334,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=20182.27,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:28,6218,0:0.996,1.586e-04:6246:11,2973,0:17,3245,0 +MT 14213 . A C, . base_quality;t_lod CONTQ=93;DP=6416;ECNT=22;MBQ=29,8,0;MFRL=334,329,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.394e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6216,14,0:2.033e-04,1.589e-04:6230:2965,8,0:3251,6,0 MT 14214 . C . . END=14214 GT:DP:MIN_DP:TLOD 0/0:6358:6358:-3.798e+00 MT 14215 . T . . END=14215 GT:DP:MIN_DP:TLOD 0/0:6361:6361:-3.347e+00 MT 14216 . A . . END=14223 GT:DP:MIN_DP:TLOD 0/0:6374:6347:-3.786e+00 -MT 14224 . A C, . base_quality;t_lod CONTQ=93;DP=6380;ECNT=22;MBQ=28,5,0;MFRL=332,365,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.443e-03;SAPP=5.765e-09,1.000,9.831e-05;TLOD=-3.415e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6168,40,0:1.923e-04,1.607e-04:6208:2932,24,0:3236,16,0 +MT 14224 . A C, . base_quality;t_lod CONTQ=93;DP=6380;ECNT=22;MBQ=28,5,0;MFRL=332,365,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-3.415e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6168,40,0:1.923e-04,1.607e-04:6208:2932,24,0:3236,16,0 MT 14225 . C . . END=14227 GT:DP:MIN_DP:TLOD 0/0:6339:6216:-3.800e+00 -MT 14228 . C A, . base_quality;t_lod CONTQ=93;DP=6390;ECNT=22;MBQ=28,13,0;MFRL=331,375,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.210e-04;SAPP=9.826e-05,1.232e-04,1.000;TLOD=-3.497e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6228,2,0:1.592e-04,1.590e-04:6230:2972,1,0:3256,1,0 +MT 14228 . C A, . base_quality;t_lod CONTQ=93;DP=6390;ECNT=22;MBQ=28,13,0;MFRL=331,375,0;MMQ=60,60,0;MPOS=16,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6228,2,0:1.592e-04,1.590e-04:6230:2972,1,0:3256,1,0 MT 14229 . C . . END=14229 GT:DP:MIN_DP:TLOD 0/0:6369:6369:-3.795e+00 -MT 14230 . A C, . base_quality;t_lod CONTQ=93;DP=6390;ECNT=22;MBQ=28,6,0;MFRL=330,328,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.890e-03;SAPP=2.088e-04,3.606e-04,0.999;TLOD=-3.434e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6211,18,0:1.848e-04,1.594e-04:6229:2947,10,0:3264,8,0 +MT 14230 . A C, . base_quality;t_lod CONTQ=93;DP=6390;ECNT=22;MBQ=28,6,0;MFRL=330,328,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.434e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6211,18,0:1.848e-04,1.594e-04:6229:2947,10,0:3264,8,0 MT 14231 . T . . END=14232 GT:DP:MIN_DP:TLOD 0/0:6378:6371:-3.762e+00 -MT 14233 . A C, . base_quality;t_lod CONTQ=93;DP=6387;ECNT=22;MBQ=28,8,0;MFRL=331,307,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.980e-03;SAPP=1.129e-04,5.672e-03,0.994;TLOD=-3.406e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6194,31,0:1.966e-04,1.599e-04:6225:2912,18,0:3282,13,0 +MT 14233 . A C, . base_quality;t_lod CONTQ=93;DP=6387;ECNT=22;MBQ=28,8,0;MFRL=331,307,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.406e+00,-3.495e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6194,31,0:1.966e-04,1.599e-04:6225:2912,18,0:3282,13,0 MT 14234 . T . . END=14240 GT:DP:MIN_DP:TLOD 0/0:6368:6332:-3.802e+00 -MT 14241 . A C, . base_quality;t_lod CONTQ=93;DP=6376;ECNT=22;MBQ=28,7,0;MFRL=329,351,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.762e-03;SAPP=6.090e-06,0.918,0.082;TLOD=-3.465e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6169,42,0:1.717e-04,1.603e-04:6211:2881,24,0:3288,18,0 +MT 14241 . A C, . base_quality;t_lod CONTQ=93;DP=6376;ECNT=22;MBQ=28,7,0;MFRL=329,351,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.465e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6169,42,0:1.717e-04,1.603e-04:6211:2881,24,0:3288,18,0 MT 14242 . A . . END=14242 GT:DP:MIN_DP:TLOD 0/0:6317:6317:-3.748e+00 -MT 14243 . G A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=6377;ECNT=22;MBQ=28,13,0;MFRL=329,397,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.036e-03;SAPP=0.998,1.257e-07,2.255e-03;TLOD=-3.434e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6170,25,0:1.842e-04,1.606e-04:6195:2877,17,0:3293,8,0 +MT 14243 . G A, . base_quality;strand_artifact;t_lod CONTQ=93;DP=6377;ECNT=22;MBQ=28,13,0;MFRL=329,397,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.434e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6170,25,0:1.842e-04,1.606e-04:6195:2877,17,0:3293,8,0 MT 14244 . C . . END=14245 GT:DP:MIN_DP:TLOD 0/0:6319:6284:-3.795e+00 -MT 14246 . C A, . base_quality;t_lod CONTQ=93;DP=6386;ECNT=22;MBQ=28,11,0;MFRL=330,382,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.035e-04;SAPP=1.618e-04,1.310e-04,1.000;TLOD=-3.495e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6218,5,0:1.598e-04,1.593e-04:6223:2896,3,0:3322,2,0 +MT 14246 . C A, . base_quality;t_lod CONTQ=93;DP=6386;ECNT=22;MBQ=28,11,0;MFRL=330,382,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6218,5,0:1.598e-04,1.593e-04:6223:2896,3,0:3322,2,0 MT 14247 . C . . END=14248 GT:DP:MIN_DP:TLOD 0/0:6337:6325:-3.794e+00 -MT 14249 . G T, . base_quality;t_lod CONTQ=93;DP=6397;ECNT=22;MBQ=24,15,0;MFRL=329,464,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.452e-03;SAPP=8.458e-04,8.991e-05,0.999;TLOD=-3.348e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6190,9,0:2.218e-04,1.608e-04:6199:2873,3,0:3317,6,0 +MT 14249 . G T, . base_quality;t_lod CONTQ=93;DP=6397;ECNT=22;MBQ=24,15,0;MFRL=329,464,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.348e+00,-3.493e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6190,9,0:2.218e-04,1.608e-04:6199:2873,3,0:3317,6,0 MT 14250 . C . . END=14257 GT:DP:MIN_DP:TLOD 0/0:7004:6954:-3.818e+00 MT 14258 . G . . END=14259 GT:DP:MIN_DP:TLOD 0/0:6857:6839:-3.409e+00 MT 14260 . A . . END=14267 GT:DP:MIN_DP:TLOD 0/0:6977:6863:-3.804e+00 @@ -5813,38 +5811,38 @@ MT 14723 . T . . END=14727 GT:DP:MIN_DP:TLOD 0/0:7095:7039:-3.798e+00 MT 14728 . T . . END=14728 GT:DP:MIN_DP:TLOD 0/0:7115:7115:-3.470e+00 MT 14729 . T . . END=14733 GT:DP:MIN_DP:TLOD 0/0:7145:7117:-3.790e+00 MT 14734 . T . . END=14734 GT:DP:MIN_DP:TLOD 0/0:7164:7164:-3.384e+00 -MT 14735 . A C, . base_quality;t_lod CONTQ=93;DP=6375;ECNT=19;MBQ=29,7,0;MFRL=330,466,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.607e-04;SAPP=1.532e-04,4.893e-05,1.000;TLOD=-3.497e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6220,1,0:1.593e-04,1.591e-04:6221:3072,1,0:3148,0,0 +MT 14735 . A C, . base_quality;t_lod CONTQ=93;DP=6375;ECNT=19;MBQ=29,7,0;MFRL=330,466,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.497e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6220,1,0:1.593e-04,1.591e-04:6221:3072,1,0:3148,0,0 MT 14736 . C . . END=14743 GT:DP:MIN_DP:TLOD 0/0:6401:6378:-3.803e+00 -MT 14744 . C A, . base_quality;t_lod CONTQ=93;DP=6445;ECNT=19;MBQ=28,13,0;MFRL=331,276,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.978e-04;SAPP=2.104e-04,1.044e-04,1.000;TLOD=-3.474e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6262,5,0:1.678e-04,1.579e-04:6267:3059,3,0:3203,2,0 +MT 14744 . C A, . base_quality;t_lod CONTQ=93;DP=6445;ECNT=19;MBQ=28,13,0;MFRL=331,276,0;MMQ=60,60,0;MPOS=42,0;POPAF=7.30,7.30;TLOD=-3.474e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6262,5,0:1.678e-04,1.579e-04:6267:3059,3,0:3203,2,0 MT 14745 . C . . END=14748 GT:DP:MIN_DP:TLOD 0/0:6401:6361:-3.786e+00 -MT 14749 . G A,T, . base_quality;t_lod CONTQ=93;DP=6450;ECNT=19;MBQ=27,11,11,0;MFRL=331,299,311,0;MMQ=60,60,60,0;MPOS=13,49,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.756e-03;SAPP=0.020,5.683e-05,0.980;TLOD=-3.319e+00,-3.322e+00,-3.323e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6253,11,2,0:1.599e-04,1.588e-04,1.585e-04:6266:3046,8,1,0:3207,3,1,0 +MT 14749 . G A,T, . base_quality;t_lod CONTQ=93;DP=6450;ECNT=19;MBQ=27,11,11,0;MFRL=331,299,311,0;MMQ=60,60,60,0;MPOS=13,49,0;POPAF=7.30,7.30,7.30;TLOD=-3.319e+00,-3.322e+00,-3.323e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6253,11,2,0:1.599e-04,1.588e-04,1.585e-04:6266:3046,8,1,0:3207,3,1,0 MT 14750 . A . . END=14753 GT:DP:MIN_DP:TLOD 0/0:6419:6347:-3.804e+00 -MT 14754 . C A, . base_quality;t_lod CONTQ=93;DP=6499;ECNT=19;MBQ=28,13,0;MFRL=331,378,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.367e-03;SAPP=2.537e-03,9.356e-05,0.997;TLOD=-3.375e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6323,15,0:2.137e-04,1.566e-04:6338:3073,5,0:3250,10,0 +MT 14754 . C A, . base_quality;t_lod CONTQ=93;DP=6499;ECNT=19;MBQ=28,13,0;MFRL=331,378,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.375e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6323,15,0:2.137e-04,1.566e-04:6338:3073,5,0:3250,10,0 MT 14755 . A . . END=14756 GT:DP:MIN_DP:TLOD 0/0:6439:6434:-3.754e+00 -MT 14757 . T G, . base_quality;t_lod CONTQ=93;DP=6510;ECNT=19;MBQ=28,7,0;MFRL=332,319,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.374e-03;SAPP=2.202e-04,3.264e-04,0.999;TLOD=-3.425e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6303,15,0:1.882e-04,1.569e-04:6318:3052,9,0:3251,6,0 +MT 14757 . T G, . base_quality;t_lod CONTQ=93;DP=6510;ECNT=19;MBQ=28,7,0;MFRL=332,319,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.425e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6303,15,0:1.882e-04,1.569e-04:6318:3052,9,0:3251,6,0 MT 14758 . A . . END=14763 GT:DP:MIN_DP:TLOD 0/0:6430:6362:-3.796e+00 -MT 14764 . A C, . base_quality;t_lod CONTQ=93;DP=6532;ECNT=19;MBQ=28,8,0;MFRL=332,360,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.938e-03;SAPP=9.772e-05,0.061,0.939;TLOD=-3.440e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6298,44,0:1.818e-04,1.569e-04:6342:3056,28,0:3242,16,0 -MT 14765 . A C, . base_quality;t_lod CONTQ=93;DP=6530;ECNT=19;MBQ=28,8,0;MFRL=332,377,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.724e-03;SAPP=9.927e-05,0.012,0.988;TLOD=-3.383e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6320,30,0:2.077e-04,1.566e-04:6350:3063,21,0:3257,9,0 -MT 14766 . C T, . PASS CONTQ=93;DP=6522;ECNT=19;MBQ=12,28,0;MFRL=331,332,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.991;SAPP=0.014,0.033,0.953;TLOD=19301.26,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:55,6273,0:0.996,1.572e-04:6328:24,3051,0:31,3222,0 -MT 14767 . T C, . base_quality;t_lod CONTQ=93;DP=6517;ECNT=19;MBQ=28,8,0;MFRL=331,372,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.215e-03;SAPP=2.011e-04,6.946e-04,0.999;TLOD=-3.445e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6295,33,0:1.803e-04,1.572e-04:6328:3045,19,0:3250,14,0 +MT 14764 . A C, . base_quality;t_lod CONTQ=93;DP=6532;ECNT=19;MBQ=28,8,0;MFRL=332,360,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.440e+00,-3.503e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6298,44,0:1.818e-04,1.569e-04:6342:3056,28,0:3242,16,0 +MT 14765 . A C, . base_quality;t_lod CONTQ=93;DP=6530;ECNT=19;MBQ=28,8,0;MFRL=332,377,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=-3.383e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6320,30,0:2.077e-04,1.566e-04:6350:3063,21,0:3257,9,0 +MT 14766 . C T, . PASS CONTQ=93;DP=6522;ECNT=19;MBQ=12,28,0;MFRL=331,332,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=19301.26,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:55,6273,0:0.996,1.572e-04:6328:24,3051,0:31,3222,0 +MT 14767 . T C, . base_quality;t_lod CONTQ=93;DP=6517;ECNT=19;MBQ=28,8,0;MFRL=331,372,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.445e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6295,33,0:1.803e-04,1.572e-04:6328:3045,19,0:3250,14,0 MT 14768 . A . . END=14769 GT:DP:MIN_DP:TLOD 0/0:6360:6316:-3.754e+00 -MT 14770 . C A, . base_quality;t_lod CONTQ=93;DP=6511;ECNT=19;MBQ=28,12,0;MFRL=332,502,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.105e-03;SAPP=9.457e-03,5.197e-05,0.990;TLOD=-3.503e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6329,7,0:1.572e-04,1.564e-04:6336:3066,5,0:3263,2,0 -MT 14771 . C CACCTAATAAAATTAATTAACCA, . t_lod CONTQ=93;DP=6515;ECNT=19;MBQ=28,26,0;MFRL=333,189,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.010,0.00,1.587e-04;SAPP=4.720e-05,1.574e-04,1.000;TLOD=-3.447e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6299,1,0:1.780e-04,1.560e-04:6300:3051,1,0:3248,0,0 +MT 14770 . C A, . base_quality;t_lod CONTQ=93;DP=6511;ECNT=19;MBQ=28,12,0;MFRL=332,502,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.503e+00,-3.505e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6329,7,0:1.572e-04,1.564e-04:6336:3066,5,0:3263,2,0 +MT 14771 . C CACCTAATAAAATTAATTAACCA, . t_lod CONTQ=93;DP=6515;ECNT=19;MBQ=28,26,0;MFRL=333,189,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.447e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6299,1,0:1.780e-04,1.560e-04:6300:3051,1,0:3248,0,0 MT 14772 . C . . END=14780 GT:DP:MIN_DP:TLOD 0/0:6442:6433:-3.807e+00 -MT 14781 . A C, . base_quality;t_lod CONTQ=93;DP=6510;ECNT=19;MBQ=28,6,0;MFRL=334,378,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.558e-03;SAPP=6.348e-05,3.708e-03,0.996;TLOD=-3.497e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6409,10,0:1.593e-04,1.551e-04:6419:3063,5,0:3346,5,0 +MT 14781 . A C, . base_quality;t_lod CONTQ=93;DP=6510;ECNT=19;MBQ=28,6,0;MFRL=334,378,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.497e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6409,10,0:1.593e-04,1.551e-04:6419:3063,5,0:3346,5,0 MT 14782 . A . . END=14782 GT:DP:MIN_DP:TLOD 0/0:6421:6421:-3.773e+00 -MT 14783 . T G, . base_quality;t_lod CONTQ=93;DP=6514;ECNT=19;MBQ=28,12,0;MFRL=334,439,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.264e-03;SAPP=1.950e-03,7.033e-05,0.998;TLOD=-3.347e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6320,8,0:2.225e-04,1.566e-04:6328:3017,5,0:3303,3,0 +MT 14783 . T G, . base_quality;t_lod CONTQ=93;DP=6514;ECNT=19;MBQ=28,12,0;MFRL=334,439,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.347e+00,-3.504e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6320,8,0:2.225e-04,1.566e-04:6328:3017,5,0:3303,3,0 MT 14784 . T . . END=14787 GT:DP:MIN_DP:TLOD 0/0:6404:6397:-3.796e+00 -MT 14788 . T G,A, . base_quality;t_lod CONTQ=93;DP=6478;ECNT=19;MBQ=28,9,11,0;MFRL=334,410,332,0;MMQ=60,60,60,0;MPOS=23,47,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.010,2.073e-03;SAPP=0.157,4.804e-05,0.842;TLOD=-3.326e+00,-3.082e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6259,9,13,0:1.574e-04,2.607e-04,1.557e-04:6281:2985,4,4,0:3274,5,9,0 +MT 14788 . T G,A, . base_quality;t_lod CONTQ=93;DP=6478;ECNT=19;MBQ=28,9,11,0;MFRL=334,410,332,0;MMQ=60,60,60,0;MPOS=23,47,0;POPAF=7.30,7.30,7.30;TLOD=-3.326e+00,-3.082e+00,-3.330e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6259,9,13,0:1.574e-04,2.607e-04,1.557e-04:6281:2985,4,4,0:3274,5,9,0 MT 14789 . A . . END=14789 GT:DP:MIN_DP:TLOD 0/0:6422:6422:-3.777e+00 -MT 14790 . A C, . base_quality;t_lod CONTQ=93;DP=6463;ECNT=19;MBQ=28,13,0;MFRL=334,301,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.112e-03;SAPP=3.566e-04,1.156e-04,1.000;TLOD=-3.477e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6288,7,0:1.668e-04,1.573e-04:6295:2984,4,0:3304,3,0 +MT 14790 . A C, . base_quality;t_lod CONTQ=93;DP=6463;ECNT=19;MBQ=28,13,0;MFRL=334,301,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.477e+00,-3.502e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6288,7,0:1.668e-04,1.573e-04:6295:2984,4,0:3304,3,0 MT 14791 . C . . END=14792 GT:DP:MIN_DP:TLOD 0/0:6389:6368:-3.723e+00 -MT 14793 . A C, . base_quality;t_lod CONTQ=93;DP=6453;ECNT=19;MBQ=28,7,0;MFRL=335,324,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.890e-03;SAPP=8.808e-07,0.986,0.014;TLOD=-3.429e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6245,37,0:1.870e-04,1.584e-04:6282:2969,15,0:3276,22,0 +MT 14793 . A C, . base_quality;t_lod CONTQ=93;DP=6453;ECNT=19;MBQ=28,7,0;MFRL=335,324,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.429e+00,-3.499e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6245,37,0:1.870e-04,1.584e-04:6282:2969,15,0:3276,22,0 MT 14794 . C . . END=14795 GT:DP:MIN_DP:TLOD 0/0:6394:6393:-3.803e+00 -MT 14796 . C A, . base_quality;t_lod CONTQ=93;DP=6453;ECNT=19;MBQ=28,11,0;MFRL=335,327,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.779e-04;SAPP=1.360e-04,1.052e-04,1.000;TLOD=-3.500e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6275,3,0:1.580e-04,1.577e-04:6278:2965,1,0:3310,2,0 -MT 14797 . A C, . base_quality;t_lod CONTQ=93;DP=6447;ECNT=19;MBQ=29,7,0;MFRL=335,351,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.551e-03;SAPP=1.671e-04,5.525e-04,0.999;TLOD=-3.495e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6256,16,0:1.599e-04,1.580e-04:6272:2949,4,0:3307,12,0 +MT 14796 . C A, . base_quality;t_lod CONTQ=93;DP=6453;ECNT=19;MBQ=28,11,0;MFRL=335,327,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.500e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6275,3,0:1.580e-04,1.577e-04:6278:2965,1,0:3310,2,0 +MT 14797 . A C, . base_quality;t_lod CONTQ=93;DP=6447;ECNT=19;MBQ=29,7,0;MFRL=335,351,0;MMQ=60,60,0;MPOS=15,0;POPAF=7.30,7.30;TLOD=-3.495e+00,-3.500e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6256,16,0:1.599e-04,1.580e-04:6272:2949,4,0:3307,12,0 MT 14798 . T . . END=14798 GT:DP:MIN_DP:TLOD 0/0:6371:6371:-3.800e+00 -MT 14799 . T C, . base_quality;t_lod CONTQ=93;DP=6429;ECNT=19;MBQ=28,7,0;MFRL=335,356,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.519e-03;SAPP=2.406e-03,1.175e-04,0.997;TLOD=-3.331e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6229,22,0:2.313e-04,1.589e-04:6251:2919,11,0:3310,11,0 +MT 14799 . T C, . base_quality;t_lod CONTQ=93;DP=6429;ECNT=19;MBQ=28,7,0;MFRL=335,356,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.331e+00,-3.498e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6229,22,0:2.313e-04,1.589e-04:6251:2919,11,0:3310,11,0 MT 14800 . C . . END=14803 GT:DP:MIN_DP:TLOD 0/0:7090:7066:-3.795e+00 MT 14804 . G . . END=14805 GT:DP:MIN_DP:TLOD 0/0:6883:6822:-3.472e+00 MT 14806 . C . . END=14812 GT:DP:MIN_DP:TLOD 0/0:7085:7021:-3.845e+00 @@ -5865,29 +5863,29 @@ MT 14851 . A . . END=14851 GT:DP:MIN_DP:TLOD 0/0:7026:7026:-3.249e+00 MT 14852 . C . . END=14857 GT:DP:MIN_DP:TLOD 0/0:7094:7074:-3.833e+00 MT 14858 . G . . END=14858 GT:DP:MIN_DP:TLOD 0/0:7000:7000:-3.371e+00 MT 14859 . G . . END=14870 GT:DP:MIN_DP:TLOD 0/0:7089:6855:-3.852e+00 -MT 14871 . T C, . base_quality;t_lod CONTQ=93;DP=6578;ECNT=11;MBQ=28,5,0;MFRL=336,376,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.630e-03;SAPP=5.876e-05,0.270,0.730;TLOD=-3.472e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6358,36,0:1.690e-04,1.555e-04:6394:3093,22,0:3265,14,0 -MT 14872 . C T, . t_lod CONTQ=93;DP=6589;ECNT=11;MBQ=28,27,0;MFRL=336,299,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.646e-03;SAPP=2.076e-04,3.732e-04,0.999;TLOD=2.12,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6407,17,0:2.086e-03,1.542e-04:6424:3122,6,0:3285,11,0 +MT 14871 . T C, . base_quality;t_lod CONTQ=93;DP=6578;ECNT=11;MBQ=28,5,0;MFRL=336,376,0;MMQ=60,60,0;MPOS=24,0;POPAF=7.30,7.30;TLOD=-3.472e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6358,36,0:1.690e-04,1.555e-04:6394:3093,22,0:3265,14,0 +MT 14872 . C T, . t_lod CONTQ=93;DP=6589;ECNT=11;MBQ=28,27,0;MFRL=336,299,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=2.12,-3.511e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6407,17,0:2.086e-03,1.542e-04:6424:3122,6,0:3285,11,0 MT 14873 . C . . END=14877 GT:DP:MIN_DP:TLOD 0/0:6541:6528:-3.813e+00 -MT 14878 . A C, . base_quality;t_lod CONTQ=93;DP=6599;ECNT=11;MBQ=28,8,0;MFRL=337,341,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,8.114e-03;SAPP=1.129e-04,0.034,0.966;TLOD=-3.420e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6357,52,0:1.917e-04,1.554e-04:6409:3089,32,0:3268,20,0 -MT 14879 . A C, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=11;MBQ=28,8,0;MFRL=337,361,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.961e-03;SAPP=5.189e-08,0.999,7.806e-04;TLOD=-3.353e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6355,51,0:2.284e-04,1.555e-04:6406:3080,28,0:3275,23,0 +MT 14878 . A C, . base_quality;t_lod CONTQ=93;DP=6599;ECNT=11;MBQ=28,8,0;MFRL=337,341,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.420e+00,-3.507e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6357,52,0:1.917e-04,1.554e-04:6409:3089,32,0:3268,20,0 +MT 14879 . A C, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=11;MBQ=28,8,0;MFRL=337,361,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.353e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6355,51,0:2.284e-04,1.555e-04:6406:3080,28,0:3275,23,0 MT 14880 . T . . END=14895 GT:DP:MIN_DP:TLOD 0/0:6572:6515:-3.817e+00 MT 14896 . C . . END=14896 GT:DP:MIN_DP:TLOD 0/0:6610:6610:-3.463e+00 MT 14897 . C . . END=14901 GT:DP:MIN_DP:TLOD 0/0:6626:6607:-3.818e+00 MT 14902 . C . . END=14902 GT:DP:MIN_DP:TLOD 0/0:6650:6650:-3.388e+00 MT 14903 . A . . END=14904 GT:DP:MIN_DP:TLOD 0/0:6604:6596:-3.769e+00 -MT 14905 . G A,C, . PASS CONTQ=93;DP=6688;ECNT=11;MBQ=28,29,8,0;MFRL=294,336,402,0;MMQ=60,60,60,0;MPOS=37,15,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.993;SAPP=0.016,0.033,0.951;TLOD=20506.80,-3.104e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:48,6415,39,0:0.995,2.634e-04,1.529e-04:6502:24,3113,13,0:24,3302,26,0 +MT 14905 . G A,C, . PASS CONTQ=93;DP=6688;ECNT=11;MBQ=28,29,8,0;MFRL=294,336,402,0;MMQ=60,60,60,0;MPOS=37,15,0;POPAF=7.30,7.30,7.30;TLOD=20506.80,-3.104e+00,-3.338e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:48,6415,39,0:0.995,2.634e-04,1.529e-04:6502:24,3113,13,0:24,3302,26,0 MT 14906 . C . . END=14909 GT:DP:MIN_DP:TLOD 0/0:6590:6571:-3.818e+00 -MT 14910 . A C, . base_quality;t_lod CONTQ=93;DP=6675;ECNT=11;MBQ=28,7,0;MFRL=336,345,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.015;SAPP=9.854e-07,0.990,9.773e-03;TLOD=-3.125e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6382,99,0:3.911e-04,1.545e-04:6481:3080,45,0:3302,54,0 +MT 14910 . A C, . base_quality;t_lod CONTQ=93;DP=6675;ECNT=11;MBQ=28,7,0;MFRL=336,345,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.125e+00,-3.510e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6382,99,0:3.911e-04,1.545e-04:6481:3080,45,0:3302,54,0 MT 14911 . C . . END=14913 GT:DP:MIN_DP:TLOD 0/0:6573:6565:-3.818e+00 -MT 14914 . A C, . base_quality;t_lod CONTQ=93;DP=6639;ECNT=11;MBQ=28,8,0;MFRL=336,367,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.011;SAPP=2.067e-04,3.075e-03,0.997;TLOD=-3.459e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6371,73,0:1.749e-04,1.547e-04:6444:3069,32,0:3302,41,0 +MT 14914 . A C, . base_quality;t_lod CONTQ=93;DP=6639;ECNT=11;MBQ=28,8,0;MFRL=336,367,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.459e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6371,73,0:1.749e-04,1.547e-04:6444:3069,32,0:3302,41,0 MT 14915 . C . . END=14925 GT:DP:MIN_DP:TLOD 0/0:6529:6452:-3.819e+00 -MT 14926 . A C, . base_quality;t_lod CONTQ=93;DP=6586;ECNT=11;MBQ=28,8,0;MFRL=335,344,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.224e-04;SAPP=1.404e-04,1.824e-04,1.000;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6499,6,0:1.544e-04,1.530e-04:6505:3107,4,0:3392,2,0 +MT 14926 . A C, . base_quality;t_lod CONTQ=93;DP=6586;ECNT=11;MBQ=28,8,0;MFRL=335,344,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.510e+00,-3.514e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6499,6,0:1.544e-04,1.530e-04:6505:3107,4,0:3392,2,0 MT 14927 . A . . END=14929 GT:DP:MIN_DP:TLOD 0/0:6549:6518:-3.782e+00 -MT 14930 . G T, . t_lod CONTQ=93;DP=6578;ECNT=11;MBQ=25,21,0;MFRL=335,320,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.242e-04;SAPP=2.500e-04,7.782e-05,1.000;TLOD=-3.420e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6404,4,0:1.891e-04,1.549e-04:6408:3072,3,0:3332,1,0 +MT 14930 . G T, . t_lod CONTQ=93;DP=6578;ECNT=11;MBQ=25,21,0;MFRL=335,320,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-3.420e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6404,4,0:1.891e-04,1.549e-04:6408:3072,3,0:3332,1,0 MT 14931 . C . . END=14937 GT:DP:MIN_DP:TLOD 0/0:6502:6489:-3.813e+00 -MT 14938 . A C, . base_quality;t_lod CONTQ=93;DP=6537;ECNT=11;MBQ=29,8,0;MFRL=334,451,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.456e-03;SAPP=7.452e-04,1.513e-04,0.999;TLOD=-3.485e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6343,22,0:1.638e-04,1.559e-04:6365:3021,10,0:3322,12,0 +MT 14938 . A C, . base_quality;t_lod CONTQ=93;DP=6537;ECNT=11;MBQ=29,8,0;MFRL=334,451,0;MMQ=60,60,0;MPOS=29,0;POPAF=7.30,7.30;TLOD=-3.485e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6343,22,0:1.638e-04,1.559e-04:6365:3021,10,0:3322,12,0 MT 14939 . T . . END=14940 GT:DP:MIN_DP:TLOD 0/0:6498:6484:-3.802e+00 -MT 14941 . A C, . base_quality;t_lod CONTQ=93;DP=6535;ECNT=11;MBQ=29,8,0;MFRL=334,335,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.144e-03;SAPP=3.067e-04,2.265e-04,0.999;TLOD=-3.339e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6341,20,0:2.277e-04,1.559e-04:6361:3024,7,0:3317,13,0 +MT 14941 . A C, . base_quality;t_lod CONTQ=93;DP=6535;ECNT=11;MBQ=29,8,0;MFRL=334,335,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.339e+00,-3.506e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6341,20,0:2.277e-04,1.559e-04:6361:3024,7,0:3317,13,0 MT 14942 . A . . END=14948 GT:DP:MIN_DP:TLOD 0/0:7123:6936:-3.815e+00 MT 14949 . A . . END=14949 GT:DP:MIN_DP:TLOD 0/0:7166:7166:-3.487e+00 MT 14950 . C . . END=14952 GT:DP:MIN_DP:TLOD 0/0:7118:7095:-3.844e+00 @@ -5977,34 +5975,34 @@ MT 15255 . T . . END=15255 GT:DP:MIN_DP:TLOD 0/0:7158:7158:-3.412e+00 MT 15256 . A . . END=15261 GT:DP:MIN_DP:TLOD 0/0:7114:6983:-3.811e+00 MT 15262 . T . . END=15262 GT:DP:MIN_DP:TLOD 0/0:7046:7046:-3.451e+00 MT 15263 . C . . END=15263 GT:DP:MIN_DP:TLOD 0/0:7097:7097:-3.734e+00 -MT 15264 . C A,T, . base_quality;t_lod CONTQ=93;DP=6308;ECNT=15;MBQ=28,14,14,0;MFRL=338,371,301,0;MMQ=60,60,60,0;MPOS=29,38,0;POPAF=7.30,7.30,7.30;SAAF=0.00,0.010,4.895e-04;SAPP=1.120e-03,4.661e-05,0.999;TLOD=-3.280e+00,-3.235e+00,-3.314e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6126,8,3,0:1.750e-04,1.924e-04,1.616e-04:6137:3255,4,2,0:2871,4,1,0 +MT 15264 . C A,T, . base_quality;t_lod CONTQ=93;DP=6308;ECNT=15;MBQ=28,14,14,0;MFRL=338,371,301,0;MMQ=60,60,60,0;MPOS=29,38,0;POPAF=7.30,7.30,7.30;TLOD=-3.280e+00,-3.235e+00,-3.314e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6126,8,3,0:1.750e-04,1.924e-04,1.616e-04:6137:3255,4,2,0:2871,4,1,0 MT 15265 . C . . END=15272 GT:DP:MIN_DP:TLOD 0/0:6272:6245:-3.795e+00 -MT 15273 . C A, . base_quality;t_lod CONTQ=93;DP=6289;ECNT=15;MBQ=28,11,0;MFRL=338,604,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.269e-04;SAPP=1.277e-04,9.775e-05,1.000;TLOD=-3.490e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6116,2,0:1.619e-04,1.617e-04:6118:3227,1,0:2889,1,0 +MT 15273 . C A, . base_quality;t_lod CONTQ=93;DP=6289;ECNT=15;MBQ=28,11,0;MFRL=338,604,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.490e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6116,2,0:1.619e-04,1.617e-04:6118:3227,1,0:2889,1,0 MT 15274 . A . . END=15274 GT:DP:MIN_DP:TLOD 0/0:6282:6282:-3.723e+00 -MT 15275 . C A, . base_quality;t_lod CONTQ=93;DP=6284;ECNT=15;MBQ=24,14,0;MFRL=337,351,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.547e-04;SAPP=1.515e-04,1.102e-04,1.000;TLOD=-3.409e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6106,4,0:1.934e-04,1.622e-04:6110:3222,0,0:2884,4,0 +MT 15275 . C A, . base_quality;t_lod CONTQ=93;DP=6284;ECNT=15;MBQ=24,14,0;MFRL=337,351,0;MMQ=60,60,0;MPOS=28,0;POPAF=7.30,7.30;TLOD=-3.409e+00,-3.489e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6106,4,0:1.934e-04,1.622e-04:6110:3222,0,0:2884,4,0 MT 15276 . G . . END=15276 GT:DP:MIN_DP:TLOD 0/0:6243:6243:-3.790e+00 -MT 15277 . A C, . base_quality;t_lod CONTQ=93;DP=6269;ECNT=15;MBQ=28,8,0;MFRL=337,380,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.902e-03;SAPP=2.305e-04,8.486e-04,0.999;TLOD=-3.292e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6064,36,0:2.535e-04,1.631e-04:6100:3179,25,0:2885,11,0 +MT 15277 . A C, . base_quality;t_lod CONTQ=93;DP=6269;ECNT=15;MBQ=28,8,0;MFRL=337,380,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.292e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6064,36,0:2.535e-04,1.631e-04:6100:3179,25,0:2885,11,0 MT 15278 . T . . END=15292 GT:DP:MIN_DP:TLOD 0/0:6275:6252:-3.797e+00 -MT 15293 . T C, . base_quality;t_lod CONTQ=93;DP=6316;ECNT=15;MBQ=29,10,0;MFRL=337,361,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.937e-03;SAPP=9.617e-04,1.292e-04,0.999;TLOD=-2.799e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6111,18,0:5.146e-04,1.616e-04:6129:3188,7,0:2923,11,0 +MT 15293 . T C, . base_quality;t_lod CONTQ=93;DP=6316;ECNT=15;MBQ=29,10,0;MFRL=337,361,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-2.799e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6111,18,0:5.146e-04,1.616e-04:6129:3188,7,0:2923,11,0 MT 15294 . T . . END=15300 GT:DP:MIN_DP:TLOD 0/0:6278:6258:-3.795e+00 -MT 15301 . G A, . PASS CONTQ=93;DP=6303;ECNT=15;MBQ=28,28,0;MFRL=324,337,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.995;SAPP=0.083,0.011,0.906;TLOD=18678.39,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:32,6030,0:0.996,1.631e-04:6062:17,3094,0:15,2936,0 +MT 15301 . G A, . PASS CONTQ=93;DP=6303;ECNT=15;MBQ=28,28,0;MFRL=324,337,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=18678.39,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:32,6030,0:0.996,1.631e-04:6062:17,3094,0:15,2936,0 MT 15302 . C . . END=15303 GT:DP:MIN_DP:TLOD 0/0:6272:6262:-3.793e+00 -MT 15304 . C A, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=28,19,0;MFRL=336,379,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.509e-04;SAPP=1.350e-04,1.201e-04,1.000;TLOD=-3.427e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6141,4,0:1.876e-04,1.611e-04:6145:3167,2,0:2974,2,0 -MT 15305 . T G, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=29,7,0;MFRL=336,384,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.284e-03;SAPP=1.084e-04,1.362e-03,0.999;TLOD=-3.475e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6115,14,0:1.678e-04,1.617e-04:6129:3159,6,0:2956,8,0 +MT 15304 . C A, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=28,19,0;MFRL=336,379,0;MMQ=60,60,0;MPOS=46,0;POPAF=7.30,7.30;TLOD=-3.427e+00,-3.492e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6141,4,0:1.876e-04,1.611e-04:6145:3167,2,0:2974,2,0 +MT 15305 . T G, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=29,7,0;MFRL=336,384,0;MMQ=60,60,0;MPOS=18,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6115,14,0:1.678e-04,1.617e-04:6129:3159,6,0:2956,8,0 MT 15306 . T . . END=15312 GT:DP:MIN_DP:TLOD 0/0:6234:6215:-3.793e+00 -MT 15313 . T TTCAGCCCTA, . t_lod CONTQ=93;DP=6301;ECNT=15;MBQ=29,28,0;MFRL=336,349,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.151e-03;SAPP=0.015,5.073e-05,0.985;TLOD=-3.448e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6075,7,0:1.783e-04,1.619e-04:6082:3132,5,0:2943,2,0 +MT 15313 . T TTCAGCCCTA, . t_lod CONTQ=93;DP=6301;ECNT=15;MBQ=29,28,0;MFRL=336,349,0;MMQ=60,60,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.448e+00,-3.490e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6075,7,0:1.783e-04,1.619e-04:6082:3132,5,0:2943,2,0 MT 15314 . G . . END=15318 GT:DP:MIN_DP:TLOD 0/0:6214:6185:-3.763e+00 -MT 15319 . C A, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=28,17,0;MFRL=336,397,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.212e-04;SAPP=1.084e-04,1.107e-04,1.000;TLOD=-3.494e+00,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6224,2,0:1.602e-04,1.596e-04:6226:3196,2,0:3028,0,0 +MT 15319 . C A, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=28,17,0;MFRL=336,397,0;MMQ=60,60,0;MPOS=10,0;POPAF=7.30,7.30;TLOD=-3.494e+00,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6224,2,0:1.602e-04,1.596e-04:6226:3196,2,0:3028,0,0 MT 15320 . C . . END=15325 GT:DP:MIN_DP:TLOD 0/0:6254:6213:-3.794e+00 -MT 15326 . A G, . PASS CONTQ=93;DP=6314;ECNT=15;MBQ=0,28,0;MFRL=0,337,0;MMQ=0,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.990,0.990,1.00;SAPP=0.027,0.027,0.946;TLOD=26024.92,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:0,6240,0:1.000,1.595e-04:6240:0,3199,0:0,3041,0 +MT 15326 . A G, . PASS CONTQ=93;DP=6314;ECNT=15;MBQ=0,28,0;MFRL=0,337,0;MMQ=0,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=26024.92,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:0,6240,0:1.000,1.595e-04:6240:0,3199,0:0,3041,0 MT 15327 . C . . END=15327 GT:DP:MIN_DP:TLOD 0/0:6250:6250:-3.713e+00 -MT 15328 . A ACTCCAC, . t_lod CONTQ=93;DP=6317;ECNT=15;MBQ=28,20,0;MFRL=337,291,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.282e-03;SAPP=6.157e-05,3.804e-03,0.996;TLOD=-3.493e+00,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6232,8,0:1.607e-04,1.595e-04:6240:3188,6,0:3044,2,0 +MT 15328 . A ACTCCAC, . t_lod CONTQ=93;DP=6317;ECNT=15;MBQ=28,20,0;MFRL=337,291,0;MMQ=60,60,0;MPOS=4,0;POPAF=7.30,7.30;TLOD=-3.493e+00,-3.496e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6232,8,0:1.607e-04,1.595e-04:6240:3188,6,0:3044,2,0 MT 15329 . C . . END=15331 GT:DP:MIN_DP:TLOD 0/0:6248:6236:-3.796e+00 -MT 15332 . C A, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=28,12,0;MFRL=337,429,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.628e-03;SAPP=6.748e-04,9.849e-05,0.999;TLOD=-3.488e+00,-3.491e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6133,10,0:1.626e-04,1.613e-04:6143:3130,8,0:3003,2,0 +MT 15332 . C A, . base_quality;t_lod CONTQ=93;DP=6312;ECNT=15;MBQ=28,12,0;MFRL=337,429,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.488e+00,-3.491e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6133,10,0:1.626e-04,1.613e-04:6143:3130,8,0:3003,2,0 MT 15333 . A . . END=15360 GT:DP:MIN_DP:TLOD 0/0:6236:6163:-3.796e+00 MT 15361 . A . . END=15361 GT:DP:MIN_DP:TLOD 0/0:6225:6225:-3.349e+00 -MT 15362 . A C, . base_quality;t_lod CONTQ=93;DP=6246;ECNT=15;MBQ=28,7,0;MFRL=335,397,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.604e-03;SAPP=2.238e-03,1.422e-04,0.998;TLOD=-3.260e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6054,28,0:2.732e-04,1.634e-04:6082:2978,13,0:3076,15,0 -MT 15363 . A C, . base_quality;t_lod CONTQ=93;DP=6249;ECNT=15;MBQ=28,6,0;MFRL=335,393,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.770e-03;SAPP=3.041e-04,4.120e-04,0.999;TLOD=-3.476e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6051,29,0:1.671e-04,1.634e-04:6080:2972,12,0:3079,17,0 +MT 15362 . A C, . base_quality;t_lod CONTQ=93;DP=6246;ECNT=15;MBQ=28,7,0;MFRL=335,397,0;MMQ=60,60,0;MPOS=37,0;POPAF=7.30,7.30;TLOD=-3.260e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6054,28,0:2.732e-04,1.634e-04:6082:2978,13,0:3076,15,0 +MT 15363 . A C, . base_quality;t_lod CONTQ=93;DP=6249;ECNT=15;MBQ=28,6,0;MFRL=335,393,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.476e+00,-3.486e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6051,29,0:1.671e-04,1.634e-04:6080:2972,12,0:3079,17,0 MT 15364 . C . . END=15364 GT:DP:MIN_DP:TLOD 0/0:7090:7090:-3.408e+00 MT 15365 . A . . END=15366 GT:DP:MIN_DP:TLOD 0/0:7058:6992:-2.449e+00 MT 15367 . C . . END=15374 GT:DP:MIN_DP:TLOD 0/0:7171:7070:-3.831e+00 @@ -6280,107 +6278,107 @@ MT 16115 . C . . END=16116 GT:DP:MIN_DP:TLOD 0/0:6996:6992:-3.410e+00 MT 16117 . T . . END=16124 GT:DP:MIN_DP:TLOD 0/0:6964:6943:-3.784e+00 MT 16125 . G . . END=16125 GT:DP:MIN_DP:TLOD 0/0:6782:6782:-3.021e+00 MT 16126 . T . . END=16128 GT:DP:MIN_DP:TLOD 0/0:6945:6804:-3.680e+00 -MT 16129 . G A, . t_lod CONTQ=93;DP=3990;ECNT=43;MBQ=27,28,0;MFRL=329,311,0;MMQ=60,60,0;MPOS=73,0;POPAF=7.30,7.30;SAAF=0.010,0.010,7.720e-04;SAPP=2.576e-04,1.577e-04,1.000;TLOD=-3.166e+00,-3.292e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3883,3,0:3.313e-04,2.555e-04:3886:1677,1,0:2206,2,0 +MT 16129 . G A, . t_lod CONTQ=93;DP=3990;ECNT=43;MBQ=27,28,0;MFRL=329,311,0;MMQ=60,60,0;MPOS=73,0;POPAF=7.30,7.30;TLOD=-3.166e+00,-3.292e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3883,3,0:3.313e-04,2.555e-04:3886:1677,1,0:2206,2,0 MT 16130 . G . . END=16132 GT:DP:MIN_DP:TLOD 0/0:3860:3847:-3.588e+00 -MT 16133 . C A, . base_quality;t_lod CONTQ=93;DP=3866;ECNT=43;MBQ=28,15,0;MFRL=329,366,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.00,5.311e-04;SAPP=1.326e-04,2.810e-04,1.000;TLOD=-3.259e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3764,2,0:2.753e-04,2.629e-04:3766:1601,2,0:2163,0,0 +MT 16133 . C A, . base_quality;t_lod CONTQ=93;DP=3866;ECNT=43;MBQ=28,15,0;MFRL=329,366,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.259e+00,-3.279e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3764,2,0:2.753e-04,2.629e-04:3766:1601,2,0:2163,0,0 MT 16134 . C . . END=16137 GT:DP:MIN_DP:TLOD 0/0:3746:3705:-3.575e+00 MT 16138 . A . . END=16139 GT:DP:MIN_DP:TLOD 0/0:3656:3637:-3.447e+00 MT 16140 . T . . END=16140 GT:DP:MIN_DP:TLOD 0/0:3600:3600:-3.525e+00 MT 16141 . A . . END=16141 GT:DP:MIN_DP:TLOD 0/0:3554:3554:-3.451e+00 MT 16142 . C . . END=16148 GT:DP:MIN_DP:TLOD 0/0:3380:3348:-3.549e+00 -MT 16149 . A C, . base_quality;t_lod CONTQ=93;DP=3413;ECNT=43;MBQ=28,7,0;MFRL=329,302,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.020,0.010,0.022;SAPP=1.328e-05,0.943,0.057;TLOD=-2.524e+00,-3.216e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3223,74,0:1.192e-03,3.042e-04:3297:1248,37,0:1975,37,0 +MT 16149 . A C, . base_quality;t_lod CONTQ=93;DP=3413;ECNT=43;MBQ=28,7,0;MFRL=329,302,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-2.524e+00,-3.216e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3223,74,0:1.192e-03,3.042e-04:3297:1248,37,0:1975,37,0 MT 16150 . C . . END=16151 GT:DP:MIN_DP:TLOD 0/0:3305:3295:-3.518e+00 MT 16152 . T . . END=16152 GT:DP:MIN_DP:TLOD 0/0:3226:3226:-3.440e+00 -MT 16153 . G T, . base_quality;t_lod CONTQ=93;DP=3330;ECNT=43;MBQ=27,12,0;MFRL=329,402,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.794e-03;SAPP=1.677e-03,1.822e-04,0.998;TLOD=-3.134e+00,-3.211e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3212,9,0:3.674e-04,3.079e-04:3221:1209,5,0:2003,4,0 +MT 16153 . G T, . base_quality;t_lod CONTQ=93;DP=3330;ECNT=43;MBQ=27,12,0;MFRL=329,402,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.134e+00,-3.211e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3212,9,0:3.674e-04,3.079e-04:3221:1209,5,0:2003,4,0 MT 16154 . T . . END=16157 GT:DP:MIN_DP:TLOD 0/0:3091:3033:-3.490e+00 MT 16158 . A . . END=16158 GT:DP:MIN_DP:TLOD 0/0:3044:3044:-2.812e+00 -MT 16159 . C A, . base_quality;t_lod CONTQ=93;DP=3178;ECNT=43;MBQ=28,15,0;MFRL=328,322,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.610e-03;SAPP=5.544e-04,3.394e-04,0.999;TLOD=-2.866e+00,-3.190e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3057,8,0:6.087e-04,3.227e-04:3065:1096,1,0:1961,7,0 +MT 16159 . C A, . base_quality;t_lod CONTQ=93;DP=3178;ECNT=43;MBQ=28,15,0;MFRL=328,322,0;MMQ=60,60,0;MPOS=31,0;POPAF=7.30,7.30;TLOD=-2.866e+00,-3.190e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:3057,8,0:6.087e-04,3.227e-04:3065:1096,1,0:1961,7,0 MT 16160 . A . . END=16160 GT:DP:MIN_DP:TLOD 0/0:2999:2999:-3.272e+00 -MT 16161 . T A, . base_quality;t_lod CONTQ=93;DP=3117;ECNT=43;MBQ=28,14,0;MFRL=328,345,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.348e-03;SAPP=5.087e-04,4.894e-04,0.999;TLOD=-2.774e+00,-3.179e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2977,10,0:7.205e-04,3.308e-04:2987:1040,3,0:1937,7,0 +MT 16161 . T A, . base_quality;t_lod CONTQ=93;DP=3117;ECNT=43;MBQ=28,14,0;MFRL=328,345,0;MMQ=60,60,0;MPOS=49,0;POPAF=7.30,7.30;TLOD=-2.774e+00,-3.179e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2977,10,0:7.205e-04,3.308e-04:2987:1040,3,0:1937,7,0 MT 16162 . A . . END=16167 GT:DP:MIN_DP:TLOD 0/0:2858:2777:-3.460e+00 -MT 16168 . C A, . base_quality;t_lod CONTQ=93;DP=2872;ECNT=43;MBQ=28,14,0;MFRL=327,331,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;SAAF=0.00,0.010,1.443e-03;SAPP=0.157,6.037e-05,0.843;TLOD=-3.144e+00,-3.147e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2768,4,0:3.587e-04,3.563e-04:2772:903,0,0:1865,4,0 -MT 16169 . C A,T, . t_lod CONTQ=93;DP=2832;ECNT=43;MBQ=28,10,29,0;MFRL=327,442,251,0;MMQ=60,60,60,0;MPOS=5,47,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,2.554e-03;SAPP=0.073,9.534e-05,0.926;TLOD=-2.853e+00,0.780,-2.967e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:2734,6,7,0:4.609e-04,2.522e-03,3.593e-04:2747:871,2,5,0:1863,4,2,0 +MT 16168 . C A, . base_quality;t_lod CONTQ=93;DP=2872;ECNT=43;MBQ=28,14,0;MFRL=327,331,0;MMQ=60,60,0;MPOS=11,0;POPAF=7.30,7.30;TLOD=-3.144e+00,-3.147e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2768,4,0:3.587e-04,3.563e-04:2772:903,0,0:1865,4,0 +MT 16169 . C A,T, . t_lod CONTQ=93;DP=2832;ECNT=43;MBQ=28,10,29,0;MFRL=327,442,251,0;MMQ=60,60,60,0;MPOS=5,47,0;POPAF=7.30,7.30,7.30;TLOD=-2.853e+00,0.780,-2.967e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:2734,6,7,0:4.609e-04,2.522e-03,3.593e-04:2747:871,2,5,0:1863,4,2,0 MT 16170 . A . . END=16170 GT:DP:MIN_DP:TLOD 0/0:2673:2673:-3.320e+00 MT 16171 . A . . END=16171 GT:DP:MIN_DP:TLOD 0/0:2550:2550:-2.198e+00 -MT 16172 . T C, . PASS CONTQ=93;DP=2730;ECNT=43;MBQ=28,28,0;MFRL=278,327,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.980,0.960,0.984;SAPP=3.745e-05,0.995,5.313e-03;TLOD=10723.90,-3.126e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:43,2590,0:0.984,3.742e-04:2633:17,796,0:26,1794,0 +MT 16172 . T C, . PASS CONTQ=93;DP=2730;ECNT=43;MBQ=28,28,0;MFRL=278,327,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=10723.90,-3.126e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:43,2590,0:0.984,3.742e-04:2633:17,796,0:26,1794,0 MT 16173 . C . . END=16174 GT:DP:MIN_DP:TLOD 0/0:2551:2532:-3.403e+00 MT 16175 . A . . END=16175 GT:DP:MIN_DP:TLOD 0/0:2457:2457:-2.338e+00 MT 16176 . C . . END=16177 GT:DP:MIN_DP:TLOD 0/0:2408:2373:-3.226e+00 MT 16178 . T . . END=16178 GT:DP:MIN_DP:TLOD 0/0:2315:2315:-1.398e+00 -MT 16179 . CAA CA,C, . PASS CONTQ=93;DP=2497;ECNT=43;MBQ=27,27,25,0;MFRL=326,326,327,0;MMQ=60,60,60,0;MPOS=32,37,0;POPAF=7.30,7.30,7.30;SAAF=0.030,0.030,0.034;SAPP=4.425e-03,1.823e-03,0.994;TLOD=39.06,7.92,-2.893e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1545,55,182,0:0.027,0.020,4.269e-04:1782:341,20,19,0:1204,35,163,0 -MT 16182 . A C,AC,ACC,ACCC, . base_quality CONTQ=93;DP=2365;ECNT=43;MBQ=20,5,15,14,23,0;MFRL=328,312,327,342,307,0;MMQ=60,60,60,60,60,0;MPOS=27,32,33,13,0;POPAF=7.30,7.30,7.30,7.30,7.30;SAAF=0.556,0.444,0.558;SAPP=4.556e-03,0.229,0.766;TLOD=0.866,936.86,159.49,1.43,-2.603e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:638,63,805,136,16,0:6.154e-03,0.473,0.087,4.916e-03,5.038e-04:1658:139,14,135,26,7,0:499,49,670,110,9,0 -MT 16183 . A C,ACCC,AC,ACC, . PASS CONTQ=93;DP=2357;ECNT=43;MBQ=24,28,14,0,8,0;MFRL=305,328,325,0,390,0;MMQ=60,60,60,0,60,0;MPOS=30,-2147483648,0,12,0;POPAF=7.30,7.30,7.30,7.30,7.30;SAAF=0.939,0.828,0.938;SAPP=1.177e-08,1.000,2.352e-06;TLOD=3477.78,9.03,-2.642e+00,-2.641e+00,-2.646e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:98,1487,185,0,1,0:0.925,0.022,4.569e-04,4.578e-04,4.529e-04:1771:36,314,20,0,1,0:62,1173,165,0,0,0 +MT 16179 . CAA CA,C, . PASS CONTQ=93;DP=2497;ECNT=43;MBQ=27,27,25,0;MFRL=326,326,327,0;MMQ=60,60,60,0;MPOS=32,37,0;POPAF=7.30,7.30,7.30;TLOD=39.06,7.92,-2.893e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:1545,55,182,0:0.027,0.020,4.269e-04:1782:341,20,19,0:1204,35,163,0 +MT 16182 . A C,AC,ACC,ACCC, . base_quality CONTQ=93;DP=2365;ECNT=43;MBQ=20,5,15,14,23,0;MFRL=328,312,327,342,307,0;MMQ=60,60,60,60,60,0;MPOS=27,32,33,13,0;POPAF=7.30,7.30,7.30,7.30,7.30;TLOD=0.866,936.86,159.49,1.43,-2.603e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:638,63,805,136,16,0:6.154e-03,0.473,0.087,4.916e-03,5.038e-04:1658:139,14,135,26,7,0:499,49,670,110,9,0 +MT 16183 . A C,ACCC,AC,ACC, . PASS CONTQ=93;DP=2357;ECNT=43;MBQ=24,28,14,0,8,0;MFRL=305,328,325,0,390,0;MMQ=60,60,60,0,60,0;MPOS=30,-2147483648,0,12,0;POPAF=7.30,7.30,7.30,7.30,7.30;TLOD=3477.78,9.03,-2.642e+00,-2.641e+00,-2.646e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3/4/5:98,1487,185,0,1,0:0.925,0.022,4.569e-04,4.578e-04,4.529e-04:1771:36,314,20,0,1,0:62,1173,165,0,0,0 MT 16184 . C . . END=16184 GT:DP:MIN_DP:TLOD 0/0:2093:2093:-2.490e+00 MT 16185 . C . . END=16185 GT:DP:MIN_DP:TLOD 0/0:2075:2075:-3.160e+00 MT 16186 . C . . END=16186 GT:DP:MIN_DP:TLOD 0/0:2061:2061:-1.880e+00 MT 16187 . C . . END=16187 GT:DP:MIN_DP:TLOD 0/0:2067:2067:-3.318e+00 -MT 16188 . CT C, . t_lod CONTQ=93;DP=2359;ECNT=43;MBQ=28,28,0;MFRL=327,0,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;SAAF=0.00,0.010,4.706e-04;SAPP=4.710e-03,8.480e-05,0.995;TLOD=-3.045e+00,-3.045e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2124,1,0:4.514e-04,4.511e-04:2125:535,0,0:1589,1,0 -MT 16189 . T C,A, . PASS CONTQ=93;DP=2323;ECNT=43;MBQ=27,28,29,0;MFRL=293,328,271,0;MMQ=60,60,60,0;MPOS=25,15,0;POPAF=7.30,7.30,7.30;SAAF=0.980,0.949,0.984;SAPP=4.223e-06,0.999,6.039e-04;TLOD=7129.46,-1.455e+00,-2.759e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:37,2227,2,0:0.982,1.027e-03,4.358e-04:2266:15,577,1,0:22,1650,1,0 +MT 16188 . CT C, . t_lod CONTQ=93;DP=2359;ECNT=43;MBQ=28,28,0;MFRL=327,0,0;MMQ=60,60,0;MPOS=7,0;POPAF=7.30,7.30;TLOD=-3.045e+00,-3.045e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2124,1,0:4.514e-04,4.511e-04:2125:535,0,0:1589,1,0 +MT 16189 . T C,A, . PASS CONTQ=93;DP=2323;ECNT=43;MBQ=27,28,29,0;MFRL=293,328,271,0;MMQ=60,60,60,0;MPOS=25,15,0;POPAF=7.30,7.30,7.30;TLOD=7129.46,-1.455e+00,-2.759e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:37,2227,2,0:0.982,1.027e-03,4.358e-04:2266:15,577,1,0:22,1650,1,0 MT 16190 . C . . END=16208 GT:DP:MIN_DP:TLOD 0/0:2055:2011:-3.344e+00 -MT 16209 . T C, . t_lod CONTQ=93;DP=2362;ECNT=43;MBQ=29,29,0;MFRL=331,255,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.541e-03;SAPP=0.182,8.305e-05,0.818;TLOD=5.60,-3.073e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2355,6,0:2.890e-03,4.230e-04:2361:607,5,0:1748,1,0:0|1:16209_T_C:16209 +MT 16209 . T C, . t_lod CONTQ=93;DP=2362;ECNT=43;MBQ=29,29,0;MFRL=331,255,0;MMQ=60,60,0;MPOS=52,0;POPAF=7.30,7.30;TLOD=5.60,-3.073e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2355,6,0:2.890e-03,4.230e-04:2361:607,5,0:1748,1,0:0|1:16209_T_C:16209 MT 16210 . A . . END=16217 GT:DP:MIN_DP:TLOD 0/0:2292:2236:-3.364e+00 -MT 16218 . C T, . t_lod CONTQ=93;DP=2504;ECNT=43;MBQ=28,31,0;MFRL=330,257,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.032e-04;SAPP=2.417e-04,2.017e-04,1.000;TLOD=-1.968e+00,-3.096e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2479,1,0:7.835e-04,4.011e-04:2480:695,1,0:1784,0,0:0|1:16218_C_T:16218 -MT 16219 . A C, . base_quality;t_lod CONTQ=93;DP=2528;ECNT=43;MBQ=28,9,0;MFRL=330,422,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;SAAF=0.010,0.00,4.542e-03;SAPP=2.472e-04,8.683e-03,0.991;TLOD=-3.080e+00,-3.089e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2411,11,0:4.158e-04,4.071e-04:2422:673,3,0:1738,8,0 +MT 16218 . C T, . t_lod CONTQ=93;DP=2504;ECNT=43;MBQ=28,31,0;MFRL=330,257,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-1.968e+00,-3.096e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2479,1,0:7.835e-04,4.011e-04:2480:695,1,0:1784,0,0:0|1:16218_C_T:16218 +MT 16219 . A C, . base_quality;t_lod CONTQ=93;DP=2528;ECNT=43;MBQ=28,9,0;MFRL=330,422,0;MMQ=60,60,0;MPOS=5,0;POPAF=7.30,7.30;TLOD=-3.080e+00,-3.089e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2411,11,0:4.158e-04,4.071e-04:2422:673,3,0:1738,8,0 MT 16220 . A . . END=16222 GT:DP:MIN_DP:TLOD 0/0:2452:2408:-3.396e+00 -MT 16223 . C T, . PASS CONTQ=93;DP=2590;ECNT=43;MBQ=27,28,0;MFRL=293,332,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;SAAF=0.980,0.980,0.984;SAPP=0.013,0.058,0.929;TLOD=8024.53,-3.103e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:40,2481,0:0.989,3.947e-04:2521:19,708,0:21,1773,0 +MT 16223 . C T, . PASS CONTQ=93;DP=2590;ECNT=43;MBQ=27,28,0;MFRL=293,332,0;MMQ=60,60,0;MPOS=26,0;POPAF=7.30,7.30;TLOD=8024.53,-3.103e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:40,2481,0:0.989,3.947e-04:2521:19,708,0:21,1773,0 MT 16224 . T . . END=16229 GT:DP:MIN_DP:TLOD 0/0:2540:2486:-3.414e+00 -MT 16230 . A G, . PASS CONTQ=93;DP=2734;ECNT=43;MBQ=28,28,0;MFRL=330,257,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.560e-03;SAPP=2.231e-03,1.686e-04,0.998;TLOD=8.05,-3.136e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2727,7,0:2.894e-03,3.654e-04:2734:809,6,0:1918,1,0 +MT 16230 . A G, . PASS CONTQ=93;DP=2734;ECNT=43;MBQ=28,28,0;MFRL=330,257,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=8.05,-3.136e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2727,7,0:2.894e-03,3.654e-04:2734:809,6,0:1918,1,0 MT 16231 . T . . END=16233 GT:DP:MIN_DP:TLOD 0/0:2654:2604:-3.414e+00 -MT 16234 . C T, . t_lod CONTQ=93;DP=2808;ECNT=43;MBQ=28,29,0;MFRL=330,255,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.190e-03;SAPP=3.346e-03,1.379e-04,0.997;TLOD=6.13,-3.142e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2734,6,0:2.520e-03,3.608e-04:2740:823,5,0:1911,1,0:0|1:16209_T_C:16209 +MT 16234 . C T, . t_lod CONTQ=93;DP=2808;ECNT=43;MBQ=28,29,0;MFRL=330,255,0;MMQ=60,60,0;MPOS=36,0;POPAF=7.30,7.30;TLOD=6.13,-3.142e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:2734,6,0:2.520e-03,3.608e-04:2740:823,5,0:1911,1,0:0|1:16209_T_C:16209 MT 16235 . A . . END=16239 GT:DP:MIN_DP:TLOD 0/0:2760:2718:-3.450e+00 MT 16240 . A . . END=16240 GT:DP:MIN_DP:TLOD 0/0:2818:2818:-2.921e+00 MT 16241 . A . . END=16246 GT:DP:MIN_DP:TLOD 0/0:2878:2828:-3.469e+00 -MT 16247 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3098;ECNT=43;MBQ=28,8,0;MFRL=327,319,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.020,0.00,0.017;SAPP=2.347e-11,1.000,1.704e-07;TLOD=-2.979e+00,-3.176e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2953,50,0:5.411e-04,3.335e-04:3003:954,27,0:1999,23,0 +MT 16247 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=3098;ECNT=43;MBQ=28,8,0;MFRL=327,319,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-2.979e+00,-3.176e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:2953,50,0:5.411e-04,3.335e-04:3003:954,27,0:1999,23,0 MT 16248 . C . . END=16248 GT:DP:MIN_DP:TLOD 0/0:3020:3020:-3.476e+00 -MT 16249 . T C, . t_lod CONTQ=93;DP=3137;ECNT=43;MBQ=28,30,0;MFRL=326,257,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.188e-04;SAPP=1.288e-04,2.159e-04,1.000;TLOD=-2.164e+00,-3.196e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3136,1,0:6.167e-04,3.185e-04:3137:1038,1,0:2098,0,0:0|1:16218_C_T:16218 +MT 16249 . T C, . t_lod CONTQ=93;DP=3137;ECNT=43;MBQ=28,30,0;MFRL=326,257,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-2.164e+00,-3.196e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3136,1,0:6.167e-04,3.185e-04:3137:1038,1,0:2098,0,0:0|1:16218_C_T:16218 MT 16250 . C . . END=16255 GT:DP:MIN_DP:TLOD 0/0:3147:3088:-3.498e+00 MT 16256 . C . . END=16256 GT:DP:MIN_DP:TLOD 0/0:3227:3227:-3.504e+00 -MT 16257 . C CA, . t_lod CONTQ=93;DP=3342;ECNT=43;MBQ=28,30,0;MFRL=325,257,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.992e-04;SAPP=1.131e-04,2.180e-04,1.000;TLOD=-2.218e+00,-3.223e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3341,1,0:5.777e-04,2.990e-04:3342:1134,1,0:2207,0,0:0|1:16218_C_T:16218 +MT 16257 . C CA, . t_lod CONTQ=93;DP=3342;ECNT=43;MBQ=28,30,0;MFRL=325,257,0;MMQ=60,60,0;MPOS=62,0;POPAF=7.30,7.30;TLOD=-2.218e+00,-3.223e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3341,1,0:5.777e-04,2.990e-04:3342:1134,1,0:2207,0,0:0|1:16218_C_T:16218 MT 16258 . A . . END=16258 GT:DP:MIN_DP:TLOD 0/0:3290:3290:-3.264e+00 MT 16259 . C . . END=16259 GT:DP:MIN_DP:TLOD 0/0:3327:3327:-3.515e+00 MT 16260 . C . . END=16262 GT:DP:MIN_DP:TLOD 0/0:3404:3367:-3.492e+00 -MT 16263 . TC T, . t_lod CONTQ=93;DP=3583;ECNT=43;MBQ=28,30,0;MFRL=324,257,0;MMQ=60,60,0;MPOS=68,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.791e-04;SAPP=1.014e-04,2.135e-04,1.000;TLOD=-2.276e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3582,1,0:5.376e-04,2.789e-04:3583:1245,1,0:2337,0,0:0|1:16218_C_T:16218 +MT 16263 . TC T, . t_lod CONTQ=93;DP=3583;ECNT=43;MBQ=28,30,0;MFRL=324,257,0;MMQ=60,60,0;MPOS=68,0;POPAF=7.30,7.30;TLOD=-2.276e+00,-3.254e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3582,1,0:5.376e-04,2.789e-04:3583:1245,1,0:2337,0,0:0|1:16218_C_T:16218 MT 16265 . A . . END=16265 GT:DP:MIN_DP:TLOD 0/0:3516:3516:-3.230e+00 MT 16266 . C . . END=16273 GT:DP:MIN_DP:TLOD 0/0:3672:3561:-3.569e+00 -MT 16274 . G A, . t_lod CONTQ=93;DP=3895;ECNT=43;MBQ=28,29,0;MFRL=324,257,0;MMQ=60,60,0;MPOS=70,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.567e-04;SAPP=8.883e-05,2.093e-04,1.000;TLOD=-2.346e+00,-3.290e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3894,1,0:4.930e-04,2.565e-04:3895:1416,1,0:2478,0,0:0|1:16218_C_T:16218 +MT 16274 . G A, . t_lod CONTQ=93;DP=3895;ECNT=43;MBQ=28,29,0;MFRL=324,257,0;MMQ=60,60,0;MPOS=70,0;POPAF=7.30,7.30;TLOD=-2.346e+00,-3.290e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:3894,1,0:4.930e-04,2.565e-04:3895:1416,1,0:2478,0,0:0|1:16218_C_T:16218 MT 16275 . A . . END=16277 GT:DP:MIN_DP:TLOD 0/0:3876:3848:-3.592e+00 -MT 16278 . C A,T, . t_lod CONTQ=93;DP=4016;ECNT=43;MBQ=28,19,28,0;MFRL=323,332,257,0;MMQ=60,60,60,0;MPOS=17,66,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.00,2.554e-04;SAPP=8.663e-05,2.141e-04,1.000;TLOD=-3.065e+00,-2.193e+00,-3.126e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3914,3,1,0:2.872e-04,4.787e-04,2.492e-04:3918:1433,0,1,0:2481,3,0,0 +MT 16278 . C A,T, . t_lod CONTQ=93;DP=4016;ECNT=43;MBQ=28,19,28,0;MFRL=323,332,257,0;MMQ=60,60,60,0;MPOS=17,66,0;POPAF=7.30,7.30,7.30;TLOD=-3.065e+00,-2.193e+00,-3.126e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:3914,3,1,0:2.872e-04,4.787e-04,2.492e-04:3918:1433,0,1,0:2481,3,0,0 MT 16279 . C . . END=16279 GT:DP:MIN_DP:TLOD 0/0:3981:3981:-3.519e+00 MT 16280 . A . . END=16280 GT:DP:MIN_DP:TLOD 0/0:4013:4013:-3.413e+00 MT 16281 . A . . END=16281 GT:DP:MIN_DP:TLOD 0/0:4040:4040:-3.602e+00 MT 16282 . C . . END=16282 GT:DP:MIN_DP:TLOD 0/0:4069:4069:-3.457e+00 MT 16283 . A . . END=16283 GT:DP:MIN_DP:TLOD 0/0:4102:4102:-3.560e+00 -MT 16284 . A G, . base_quality;t_lod CONTQ=93;DP=4218;ECNT=43;MBQ=28,19,0;MFRL=323,257,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.371e-04;SAPP=7.791e-05,2.079e-04,1.000;TLOD=-2.412e+00,-3.324e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4217,1,0:4.538e-04,2.369e-04:4218:1579,1,0:2638,0,0:0|1:16218_C_T:16218 -MT 16285 . A C, . base_quality;t_lod CONTQ=93;DP=4243;ECNT=43;MBQ=28,7,0;MFRL=323,321,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,0.014;SAPP=1.836e-13,1.000,2.089e-09;TLOD=-1.667e+00,-3.315e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4077,59,0:1.441e-03,2.418e-04:4136:1533,30,0:2544,29,0 +MT 16284 . A G, . base_quality;t_lod CONTQ=93;DP=4218;ECNT=43;MBQ=28,19,0;MFRL=323,257,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;TLOD=-2.412e+00,-3.324e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4217,1,0:4.538e-04,2.369e-04:4218:1579,1,0:2638,0,0:0|1:16218_C_T:16218 +MT 16285 . A C, . base_quality;t_lod CONTQ=93;DP=4243;ECNT=43;MBQ=28,7,0;MFRL=323,321,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-1.667e+00,-3.315e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4077,59,0:1.441e-03,2.418e-04:4136:1533,30,0:2544,29,0 MT 16286 . C . . END=16287 GT:DP:MIN_DP:TLOD 0/0:4210:4193:-3.594e+00 -MT 16288 . T C, . t_lod CONTQ=93;DP=4345;ECNT=43;MBQ=28,29,0;MFRL=323,257,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.301e-04;SAPP=7.397e-05,2.087e-04,1.000;TLOD=-2.437e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4344,1,0:4.400e-04,2.300e-04:4345:1660,1,0:2684,0,0:0|1:16218_C_T:16218 -MT 16289 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=4377;ECNT=43;MBQ=28,5,0;MFRL=323,318,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.010,0.00,0.011;SAPP=1.816e-15,1.000,2.416e-11;TLOD=-3.180e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4213,49,0:3.298e-04,2.344e-04:4262:1624,12,0:2589,37,0 -MT 16290 . C T, . t_lod CONTQ=93;DP=4414;ECNT=43;MBQ=28,25,0;MFRL=323,257,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.266e-04;SAPP=7.195e-05,2.094e-04,1.000;TLOD=-2.450e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4413,1,0:4.328e-04,2.264e-04:4414:1694,1,0:2719,0,0:0|1:16218_C_T:16218 +MT 16288 . T C, . t_lod CONTQ=93;DP=4345;ECNT=43;MBQ=28,29,0;MFRL=323,257,0;MMQ=60,60,0;MPOS=56,0;POPAF=7.30,7.30;TLOD=-2.437e+00,-3.337e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4344,1,0:4.400e-04,2.300e-04:4345:1660,1,0:2684,0,0:0|1:16218_C_T:16218 +MT 16289 . A C, . base_quality;strand_artifact;t_lod CONTQ=93;DP=4377;ECNT=43;MBQ=28,5,0;MFRL=323,318,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.180e+00,-3.329e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4213,49,0:3.298e-04,2.344e-04:4262:1624,12,0:2589,37,0 +MT 16290 . C T, . t_lod CONTQ=93;DP=4414;ECNT=43;MBQ=28,25,0;MFRL=323,257,0;MMQ=60,60,0;MPOS=54,0;POPAF=7.30,7.30;TLOD=-2.450e+00,-3.344e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4413,1,0:4.328e-04,2.264e-04:4414:1694,1,0:2719,0,0:0|1:16218_C_T:16218 MT 16291 . C . . END=16292 GT:DP:MIN_DP:TLOD 0/0:4396:4367:-3.574e+00 -MT 16293 . A T,C, . PASS CONTQ=93;DP=4488;ECNT=43;MBQ=29,28,29,0;MFRL=293,323,257,0;MMQ=60,60,60,0;MPOS=43,51,0;POPAF=7.30,7.30,7.30;SAAF=0.990,0.990,0.995;SAPP=0.024,0.023,0.953;TLOD=14070.36,-2.288e+00,-3.175e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:24,4372,1,0:0.995,4.252e-04,2.226e-04:4397:9,1684,1,0:15,2688,0,0 +MT 16293 . A T,C, . PASS CONTQ=93;DP=4488;ECNT=43;MBQ=29,28,29,0;MFRL=293,323,257,0;MMQ=60,60,60,0;MPOS=43,51,0;POPAF=7.30,7.30,7.30;TLOD=14070.36,-2.288e+00,-3.175e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:24,4372,1,0:0.995,4.252e-04,2.226e-04:4397:9,1684,1,0:15,2688,0,0 MT 16294 . C . . END=16294 GT:DP:MIN_DP:TLOD 0/0:4476:4476:-3.644e+00 MT 16295 . C . . END=16295 GT:DP:MIN_DP:TLOD 0/0:4494:4494:-3.360e+00 MT 16296 . C . . END=16298 GT:DP:MIN_DP:TLOD 0/0:4550:4529:-3.648e+00 -MT 16299 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4665;ECNT=43;MBQ=29,0,0;MFRL=323,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;SAAF=0.00,0.00,0.00;SAPP=6.559e-05,6.955e-05,1.000;TLOD=-3.368e+00,-3.368e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4665,0,0:2.142e-04,2.142e-04:4665:1821,0,0:2844,0,0 -MT 16300 . A C, . base_quality;t_lod CONTQ=93;DP=4685;ECNT=43;MBQ=28,8,0;MFRL=324,392,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.684e-03;SAPP=1.012e-05,0.879,0.121;TLOD=-3.338e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4548,26,0:2.301e-04,2.174e-04:4574:1778,9,0:2770,17,0 -MT 16301 . C T, . t_lod CONTQ=93;DP=4700;ECNT=43;MBQ=28,30,0;MFRL=324,257,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.128e-04;SAPP=6.417e-05,2.143e-04,1.000;TLOD=-2.502e+00,-3.371e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4699,1,0:4.053e-04,2.126e-04:4700:1842,1,0:2857,0,0:0|1:16218_C_T:16218 +MT 16299 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1;DP=4665;ECNT=43;MBQ=29,0,0;MFRL=323,0,0;MMQ=60,0,0;MPOS=0,0;POPAF=7.30,7.30;TLOD=-3.368e+00,-3.368e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4665,0,0:2.142e-04,2.142e-04:4665:1821,0,0:2844,0,0 +MT 16300 . A C, . base_quality;t_lod CONTQ=93;DP=4685;ECNT=43;MBQ=28,8,0;MFRL=324,392,0;MMQ=60,60,0;MPOS=25,0;POPAF=7.30,7.30;TLOD=-3.338e+00,-3.362e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4548,26,0:2.301e-04,2.174e-04:4574:1778,9,0:2770,17,0 +MT 16301 . C T, . t_lod CONTQ=93;DP=4700;ECNT=43;MBQ=28,30,0;MFRL=324,257,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-2.502e+00,-3.371e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:4699,1,0:4.053e-04,2.126e-04:4700:1842,1,0:2857,0,0:0|1:16218_C_T:16218 MT 16302 . A . . END=16308 GT:DP:MIN_DP:TLOD 0/0:4749:4673:-3.669e+00 MT 16309 . A . . END=16309 GT:DP:MIN_DP:TLOD 0/0:4846:4846:-3.433e+00 -MT 16310 . G T, . base_quality;t_lod CONTQ=93;DP=4918;ECNT=43;MBQ=28,12,0;MFRL=325,325,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.242e-04;SAPP=9.525e-05,2.836e-04,1.000;TLOD=-3.383e+00,-3.384e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4803,3,0:2.072e-04,2.066e-04:4806:1942,1,0:2861,2,0 -MT 16311 . T C, . t_lod CONTQ=93;DP=4937;ECNT=43;MBQ=29,29,0;MFRL=325,257,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.00,2.026e-04;SAPP=5.870e-05,2.196e-04,1.000;TLOD=-2.543e+00,-3.393e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4934,1,0:3.851e-04,2.025e-04:4935:1991,1,0:2943,0,0 +MT 16310 . G T, . base_quality;t_lod CONTQ=93;DP=4918;ECNT=43;MBQ=28,12,0;MFRL=325,325,0;MMQ=60,60,0;MPOS=23,0;POPAF=7.30,7.30;TLOD=-3.383e+00,-3.384e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4803,3,0:2.072e-04,2.066e-04:4806:1942,1,0:2861,2,0 +MT 16311 . T C, . t_lod CONTQ=93;DP=4937;ECNT=43;MBQ=29,29,0;MFRL=325,257,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-2.543e+00,-3.393e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4934,1,0:3.851e-04,2.025e-04:4935:1991,1,0:2943,0,0 MT 16312 . A . . END=16316 GT:DP:MIN_DP:TLOD 0/0:5005:4942:-3.699e+00 -MT 16317 . A C, . base_quality;t_lod CONTQ=93;DP=5121;ECNT=43;MBQ=28,8,0;MFRL=325,384,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.395e-03;SAPP=1.989e-04,1.091e-03,0.999;TLOD=-3.392e+00,-3.401e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4984,22,0:2.027e-04,1.986e-04:5006:2048,11,0:2936,11,0 +MT 16317 . A C, . base_quality;t_lod CONTQ=93;DP=5121;ECNT=43;MBQ=28,8,0;MFRL=325,384,0;MMQ=60,60,0;MPOS=27,0;POPAF=7.30,7.30;TLOD=-3.392e+00,-3.401e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:4984,22,0:2.027e-04,1.986e-04:5006:2048,11,0:2936,11,0 MT 16318 . A . . END=16319 GT:DP:MIN_DP:TLOD 0/0:5131:5123:-3.701e+00 -MT 16320 . C T, . PASS CONTQ=93;DP=5220;ECNT=43;MBQ=28,28,0;MFRL=311,326,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.994;SAPP=0.047,0.014,0.939;TLOD=16350.64,-3.410e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:32,5073,0:0.995,1.945e-04:5105:11,2092,0:21,2981,0 +MT 16320 . C T, . PASS CONTQ=93;DP=5220;ECNT=43;MBQ=28,28,0;MFRL=311,326,0;MMQ=60,60,0;MPOS=39,0;POPAF=7.30,7.30;TLOD=16350.64,-3.410e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:32,5073,0:0.995,1.945e-04:5105:11,2092,0:21,2981,0 MT 16321 . C . . END=16327 GT:DP:MIN_DP:TLOD 0/0:5327:5239:-3.729e+00 MT 16328 . C . . END=16328 GT:DP:MIN_DP:TLOD 0/0:5477:5477:-3.426e+00 MT 16329 . G . . END=16337 GT:DP:MIN_DP:TLOD 0/0:5636:5457:-3.751e+00 -MT 16338 . A C, . base_quality;t_lod CONTQ=93;DP=5697;ECNT=43;MBQ=28,9,0;MFRL=329,443,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.522e-03;SAPP=2.456e-04,3.431e-04,0.999;TLOD=-3.372e+00,-3.447e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5537,14,0:2.125e-04,1.786e-04:5551:2322,8,0:3215,6,0 +MT 16338 . A C, . base_quality;t_lod CONTQ=93;DP=5697;ECNT=43;MBQ=28,9,0;MFRL=329,443,0;MMQ=60,60,0;MPOS=14,0;POPAF=7.30,7.30;TLOD=-3.372e+00,-3.447e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5537,14,0:2.125e-04,1.786e-04:5551:2322,8,0:3215,6,0 MT 16339 . C . . END=16350 GT:DP:MIN_DP:TLOD 0/0:5691:5664:-3.756e+00 -MT 16351 . A C, . base_quality;t_lod CONTQ=93;DP=5733;ECNT=43;MBQ=28,8,0;MFRL=330,366,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;SAAF=0.010,0.010,5.354e-03;SAPP=4.386e-05,0.440,0.560;TLOD=-3.428e+00,-3.449e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5573,30,0:1.868e-04,1.778e-04:5603:2337,15,0:3236,15,0 +MT 16351 . A C, . base_quality;t_lod CONTQ=93;DP=5733;ECNT=43;MBQ=28,8,0;MFRL=330,366,0;MMQ=60,60,0;MPOS=32,0;POPAF=7.30,7.30;TLOD=-3.428e+00,-3.449e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5573,30,0:1.868e-04,1.778e-04:5603:2337,15,0:3236,15,0 MT 16352 . T . . END=16354 GT:DP:MIN_DP:TLOD 0/0:5744:5707:-3.752e+00 -MT 16355 . C T, . t_lod CONTQ=93;DP=5757;ECNT=43;MBQ=28,28,0;MFRL=332,0,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.271e-04;SAPP=4.412e-04,7.083e-05,0.999;TLOD=-3.774e-01,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5688,3,0:6.748e-04,1.748e-04:5691:2410,1,0:3278,2,0:0|1:16355_C_T:16355 -MT 16356 . T C, . t_lod CONTQ=93;DP=5754;ECNT=43;MBQ=28,27,0;MFRL=332,0,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;SAAF=0.00,0.010,5.245e-04;SAPP=4.363e-04,7.074e-05,0.999;TLOD=-3.846e-01,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5717,3,0:6.718e-04,1.743e-04:5720:2427,1,0:3290,2,0:0|1:16355_C_T:16355 +MT 16355 . C T, . t_lod CONTQ=93;DP=5757;ECNT=43;MBQ=28,28,0;MFRL=332,0,0;MMQ=60,60,0;MPOS=20,0;POPAF=7.30,7.30;TLOD=-3.774e-01,-3.457e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5688,3,0:6.748e-04,1.748e-04:5691:2410,1,0:3278,2,0:0|1:16355_C_T:16355 +MT 16356 . T C, . t_lod CONTQ=93;DP=5754;ECNT=43;MBQ=28,27,0;MFRL=332,0,0;MMQ=60,60,0;MPOS=21,0;POPAF=7.30,7.30;TLOD=-3.846e-01,-3.458e+00 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS 0|1|2:5717,3,0:6.718e-04,1.743e-04:5720:2427,1,0:3290,2,0:0|1:16355_C_T:16355 MT 16357 . T . . END=16358 GT:DP:MIN_DP:TLOD 0/0:6985:6974:-3.651e+00 MT 16359 . T . . END=16359 GT:DP:MIN_DP:TLOD 0/0:6951:6951:-6.671e-01 MT 16360 . C . . END=16360 GT:DP:MIN_DP:TLOD 0/0:6902:6902:-3.721e+00 @@ -6434,34 +6432,34 @@ MT 16467 . C . . END=16474 GT:DP:MIN_DP:TLOD 0/0:6935:6882:-3.802e+00 MT 16475 . T . . END=16475 GT:DP:MIN_DP:TLOD 0/0:6900:6900:-3.226e+00 MT 16476 . A . . END=16478 GT:DP:MIN_DP:TLOD 0/0:6969:6965:-3.767e+00 MT 16479 . T . . END=16481 GT:DP:MIN_DP:TLOD 0/0:7048:7025:-3.397e+00 -MT 16482 . A G, . base_quality;t_lod CONTQ=93;DP=6566;ECNT=15;MBQ=29,8,0;MFRL=537,456,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;SAAF=0.010,0.010,9.419e-04;SAPP=8.698e-05,4.262e-04,0.999;TLOD=-3.459e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6364,6,0:1.734e-04,1.553e-04:6370:3080,4,0:3284,2,0 +MT 16482 . A G, . base_quality;t_lod CONTQ=93;DP=6566;ECNT=15;MBQ=29,8,0;MFRL=537,456,0;MMQ=60,60,0;MPOS=19,0;POPAF=7.30,7.30;TLOD=-3.459e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6364,6,0:1.734e-04,1.553e-04:6370:3080,4,0:3284,2,0 MT 16483 . G . . END=16483 GT:DP:MIN_DP:TLOD 0/0:6472:6472:-3.798e+00 -MT 16484 . T C, . base_quality;t_lod CONTQ=93;DP=6579;ECNT=15;MBQ=28,4,0;MFRL=540,8340,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.567e-03;SAPP=1.538e-04,2.389e-04,1.000;TLOD=-3.430e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6371,10,0:1.847e-04,1.551e-04:6381:3086,5,0:3285,5,0 +MT 16484 . T C, . base_quality;t_lod CONTQ=93;DP=6579;ECNT=15;MBQ=28,4,0;MFRL=540,8340,0;MMQ=60,60,0;MPOS=13,0;POPAF=7.30,7.30;TLOD=-3.430e+00,-3.508e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6371,10,0:1.847e-04,1.551e-04:6381:3086,5,0:3285,5,0 MT 16485 . G . . END=16486 GT:DP:MIN_DP:TLOD 0/0:6504:6496:-3.797e+00 -MT 16487 . A G,T, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=15;MBQ=28,7,13,0;MFRL=546,469,16144,0;MMQ=60,60,60,0;MPOS=40,8,0;POPAF=7.30,7.30,7.30;SAAF=0.010,0.010,1.722e-03;SAPP=6.226e-05,6.217e-03,0.994;TLOD=-3.102e+00,-3.332e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6378,11,3,0:2.514e-04,1.551e-04,1.548e-04:6392:3086,6,3,0:3292,5,0,0 +MT 16487 . A G,T, . base_quality;t_lod CONTQ=93;DP=6594;ECNT=15;MBQ=28,7,13,0;MFRL=546,469,16144,0;MMQ=60,60,60,0;MPOS=40,8,0;POPAF=7.30,7.30,7.30;TLOD=-3.102e+00,-3.332e+00,-3.333e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2/3:6378,11,3,0:2.514e-04,1.551e-04,1.548e-04:6392:3086,6,3,0:3292,5,0,0 MT 16488 . C . . END=16488 GT:DP:MIN_DP:TLOD 0/0:6522:6522:-3.811e+00 -MT 16489 . T C, . base_quality;t_lod CONTQ=93;DP=6573;ECNT=15;MBQ=29,5,0;MFRL=554,505,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.494e-03;SAPP=1.522e-04,6.216e-04,0.999;TLOD=-3.475e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6399,16,0:1.674e-04,1.547e-04:6415:3090,9,0:3309,7,0 +MT 16489 . T C, . base_quality;t_lod CONTQ=93;DP=6573;ECNT=15;MBQ=29,5,0;MFRL=554,505,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.475e+00,-3.509e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6399,16,0:1.674e-04,1.547e-04:6415:3090,9,0:3309,7,0 MT 16490 . G . . END=16494 GT:DP:MIN_DP:TLOD 0/0:6513:6460:-3.808e+00 -MT 16495 . C A, . base_quality;t_lod CONTQ=93;DP=6416;ECNT=15;MBQ=26,13,0;MFRL=612,16255,0;MMQ=60,60,0;MPOS=55,0;POPAF=7.30,7.30;SAAF=0.010,0.010,6.337e-04;SAPP=2.338e-04,8.306e-05,1.000;TLOD=-3.424e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6308,4,0:1.869e-04,1.577e-04:6312:3053,1,0:3255,3,0 +MT 16495 . C A, . base_quality;t_lod CONTQ=93;DP=6416;ECNT=15;MBQ=26,13,0;MFRL=612,16255,0;MMQ=60,60,0;MPOS=55,0;POPAF=7.30,7.30;TLOD=-3.424e+00,-3.501e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6308,4,0:1.869e-04,1.577e-04:6312:3053,1,0:3255,3,0 MT 16496 . G . . END=16497 GT:DP:MIN_DP:TLOD 0/0:6362:6359:-3.793e+00 -MT 16498 . C A, . base_quality;t_lod CONTQ=93;DP=6306;ECNT=15;MBQ=28,12,0;MFRL=675,270,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;SAAF=0.010,0.00,6.433e-04;SAPP=4.567e-05,2.353e-03,0.998;TLOD=-3.492e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6214,4,0:1.610e-04,1.602e-04:6218:3008,0,0:3206,4,0 +MT 16498 . C A, . base_quality;t_lod CONTQ=93;DP=6306;ECNT=15;MBQ=28,12,0;MFRL=675,270,0;MMQ=60,60,0;MPOS=40,0;POPAF=7.30,7.30;TLOD=-3.492e+00,-3.494e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6214,4,0:1.610e-04,1.602e-04:6218:3008,0,0:3206,4,0 MT 16499 . A . . END=16501 GT:DP:MIN_DP:TLOD 0/0:6249:6234:-3.763e+00 -MT 16502 . T G, . base_quality;t_lod CONTQ=93;DP=6166;ECNT=15;MBQ=29,9,0;MFRL=749,321,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.135e-03;SAPP=9.016e-05,2.146e-03,0.998;TLOD=-3.472e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6075,13,0:1.686e-04,1.638e-04:6088:2942,6,0:3133,7,0 +MT 16502 . T G, . base_quality;t_lod CONTQ=93;DP=6166;ECNT=15;MBQ=29,9,0;MFRL=749,321,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=-3.472e+00,-3.485e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:6075,13,0:1.686e-04,1.638e-04:6088:2942,6,0:3133,7,0 MT 16503 . G . . END=16509 GT:DP:MIN_DP:TLOD 0/0:6058:5961:-3.779e+00 -MT 16510 . A C, . base_quality;t_lod CONTQ=93;DP=5913;ECNT=15;MBQ=29,8,0;MFRL=15863,450,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;SAAF=0.010,0.010,4.806e-03;SAPP=1.534e-04,1.774e-03,0.998;TLOD=-3.353e+00,-3.465e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5798,28,0:2.241e-04,1.713e-04:5826:2802,12,0:2996,16,0 +MT 16510 . A C, . base_quality;t_lod CONTQ=93;DP=5913;ECNT=15;MBQ=29,8,0;MFRL=15863,450,0;MMQ=60,60,0;MPOS=33,0;POPAF=7.30,7.30;TLOD=-3.353e+00,-3.465e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5798,28,0:2.241e-04,1.713e-04:5826:2802,12,0:2996,16,0 MT 16511 . C . . END=16514 GT:DP:MIN_DP:TLOD 0/0:5823:5773:-3.768e+00 -MT 16515 . A C, . base_quality;t_lod CONTQ=93;DP=5747;ECNT=15;MBQ=29,8,0;MFRL=15907,418,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.189e-03;SAPP=1.981e-04,4.573e-04,0.999;TLOD=-3.364e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5626,18,0:2.167e-04,1.765e-04:5644:2733,4,0:2893,14,0 +MT 16515 . A C, . base_quality;t_lod CONTQ=93;DP=5747;ECNT=15;MBQ=29,8,0;MFRL=15907,418,0;MMQ=60,60,0;MPOS=30,0;POPAF=7.30,7.30;TLOD=-3.364e+00,-3.452e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5626,18,0:2.167e-04,1.765e-04:5644:2733,4,0:2893,14,0 MT 16516 . G . . END=16516 GT:DP:MIN_DP:TLOD 0/0:5635:5635:-3.579e+00 -MT 16517 . G T, . base_quality;t_lod CONTQ=93;DP=5664;ECNT=15;MBQ=28,13,0;MFRL=15934,397,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.078e-03;SAPP=1.488e-04,2.538e-04,1.000;TLOD=-3.236e+00,-3.446e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5559,6,0:2.789e-04,1.789e-04:5565:2696,2,0:2863,4,0 +MT 16517 . G T, . base_quality;t_lod CONTQ=93;DP=5664;ECNT=15;MBQ=28,13,0;MFRL=15934,397,0;MMQ=60,60,0;MPOS=60,0;POPAF=7.30,7.30;TLOD=-3.236e+00,-3.446e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5559,6,0:2.789e-04,1.789e-04:5565:2696,2,0:2863,4,0 MT 16518 . G . . END=16518 GT:DP:MIN_DP:TLOD 0/0:5560:5560:-3.737e+00 -MT 16519 . T C, . PASS CONTQ=93;DP=5579;ECNT=15;MBQ=27,28,0;MFRL=399,15950,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.990,0.990,0.995;SAPP=0.025,0.024,0.951;TLOD=17429.14,-3.440e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:25,5459,0:0.996,1.815e-04:5484:8,2662,0:17,2797,0 -MT 16520 . C A, . base_quality;t_lod CONTQ=93;DP=5535;ECNT=15;MBQ=28,19,0;MFRL=15949,328,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;SAAF=0.010,0.00,3.671e-04;SAPP=5.157e-05,5.886e-04,0.999;TLOD=-3.349e+00,-3.437e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5446,2,0:2.209e-04,1.826e-04:5448:2650,0,0:2796,2,0 +MT 16519 . T C, . PASS CONTQ=93;DP=5579;ECNT=15;MBQ=27,28,0;MFRL=399,15950,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=17429.14,-3.440e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:25,5459,0:0.996,1.815e-04:5484:8,2662,0:17,2797,0 +MT 16520 . C A, . base_quality;t_lod CONTQ=93;DP=5535;ECNT=15;MBQ=28,19,0;MFRL=15949,328,0;MMQ=60,60,0;MPOS=50,0;POPAF=7.30,7.30;TLOD=-3.349e+00,-3.437e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5446,2,0:2.209e-04,1.826e-04:5448:2650,0,0:2796,2,0 MT 16521 . A . . END=16526 GT:DP:MIN_DP:TLOD 0/0:5341:5227:-3.724e+00 -MT 16527 . C T, . t_lod CONTQ=93;DP=5335;ECNT=15;MBQ=29,28,0;MFRL=16029,325,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;SAAF=0.010,0.010,3.284e-03;SAPP=1.379e-04,1.357e-03,0.999;TLOD=3.68,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5160,17,0:2.715e-03,1.911e-04:5177:2513,10,0:2647,7,0 +MT 16527 . C T, . t_lod CONTQ=93;DP=5335;ECNT=15;MBQ=29,28,0;MFRL=16029,325,0;MMQ=60,60,0;MPOS=43,0;POPAF=7.30,7.30;TLOD=3.68,-3.418e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5160,17,0:2.715e-03,1.911e-04:5177:2513,10,0:2647,7,0 MT 16528 . C . . END=16530 GT:DP:MIN_DP:TLOD 0/0:5215:5194:-3.649e+00 -MT 16531 . A C, . base_quality;t_lod CONTQ=93;DP=5314;ECNT=15;MBQ=29,7,0;MFRL=16066,15988,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;SAAF=0.010,0.010,2.519e-03;SAPP=3.336e-04,2.641e-04,0.999;TLOD=-3.365e+00,-3.416e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5148,13,0:2.157e-04,1.918e-04:5161:2511,4,0:2637,9,0 +MT 16531 . A C, . base_quality;t_lod CONTQ=93;DP=5314;ECNT=15;MBQ=29,7,0;MFRL=16066,15988,0;MMQ=60,60,0;MPOS=41,0;POPAF=7.30,7.30;TLOD=-3.365e+00,-3.416e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5148,13,0:2.157e-04,1.918e-04:5161:2511,4,0:2637,9,0 MT 16532 . A . . END=16534 GT:DP:MIN_DP:TLOD 0/0:5179:5130:-3.701e+00 -MT 16535 . G T, . base_quality;t_lod CONTQ=93;DP=5256;ECNT=15;MBQ=29,12,0;MFRL=16088,16067,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;SAAF=0.010,0.010,1.576e-03;SAPP=4.736e-04,1.390e-04,0.999;TLOD=-3.279e+00,-3.410e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5069,8,0:2.598e-04,1.946e-04:5077:2478,5,0:2591,3,0 +MT 16535 . G T, . base_quality;t_lod CONTQ=93;DP=5256;ECNT=15;MBQ=29,12,0;MFRL=16088,16067,0;MMQ=60,60,0;MPOS=22,0;POPAF=7.30,7.30;TLOD=-3.279e+00,-3.410e+00 GT:AD:AF:DP:F1R2:F2R1 0/1/2:5069,8,0:2.598e-04,1.946e-04:5077:2478,5,0:2591,3,0 MT 16536 . C . . END=16536 GT:DP:MIN_DP:TLOD 0/0:5456:5456:-3.711e+00 MT 16537 . C . . END=16539 GT:DP:MIN_DP:TLOD 0/0:5484:5478:-3.492e+00 MT 16540 . C . . END=16544 GT:DP:MIN_DP:TLOD 0/0:5312:5178:-3.720e+00 diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA19240.MT.filtered.g.vcf.idx b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/NA19240.MT.filtered.g.vcf.idx index e2c9e1ccb316ce66dd9a0aa53085d16fa1b6184a..13ceedfbbe75eba0b3d9e52afd9c2ecf0b961f17 100644 GIT binary patch literal 216 zcmXv|F%H5o40K`Q2kb0NH6R#Z0u_N6%2W_*)3_ySXrwqTpW;U>Jc0+1s?^d+cPF2H z$!UKJ0AT2mD@_|jyf9ftnKnuas!&*yN-R=WBHIidu|rF2YMT+Gu|>C`Dt5}%j_^)e z`=BI?&KS-3Om*3wjLbu*ijLRlzZ+_1mgu=3{h_dT0yfqL**3IsNUD*gMC?>Y0 z8Wa2hnusx=@mGvWt*wfyBBcmR@SiF)DfLI&Xaz)pXcRT6X>IzQd+y`C+nY@Gz0ZE< zJ7>d*OdF$6qk42vbLwU++SR`vVX;zRh?bsHO1yq zYwxOZU+>N3VoQSz%7{X9sepNF%l+lnX`FTjzN`oUQb~=q8Aw4=TdR#XnTeE<2;r>E7M2P`CsroGX0s5j#Q#I$lZ+r- z;k60YWYI~)E0onzhiq~91);6+HVaRBN~8={Aqq}YLOv1RD^sxzgdM3QB-s=t$Z6PG zd`PDtp(c?koQ@4!wNeXXT^9agWW_2kY$b0?;EBAS7BrVgI_m-(&RZaaP{J2rtXvj4 zL*)RGZ;?fp(GY1s;%g1G1XUh~QA?#rsY`OcIyxZ3%G7GLjnv>|YN?36+Q~|WI0h5L z#X(ojIisnA!%5aS$dGEi^x0vuR_N&9O~~!d#2xDdWmw~YQckHAwY!jkwL#{!Nz?|P z&x0{34Jwy(&Dx-IR48bTkRqSo=wJlut2Q#tT4!q`QzAxYq!2kRu5qM6=Y3flbbc2x z>qg=7)vjh@&WzS3@0-S;t;+kRt7#W6TC^UB!RB)55)F6jeKBbUK6RX(_o&v&|=1TCu88+|Y?nV{L_ zTShD=nYhH}y(`$|3QD9IOg#E*O(ZDt)CAYCcJnf%0piByPe;W_6kaWrms6J5xFp)Q zsRY>4*dc^>0-YY!fO@~GsiD-qu&HA~Q_H;4)g8@E4K3&?1)FH8@Zb#?&^!N6wWu_= zV{X&+goAKSz+73UaHH?%Z1p&b>_pQZC5LDR;2%AR&?yso{agck(f zH1QRT#@>!UedCGD`9u%j9pCpv)5j6X9}@iwe=q$B z(cAdg1<5aVq%t~s8POl{(Sa}NVurV3y4)^&-QB?K(Md!enm=JYxP{q?i-^V{grQhx z>`?pz&r-zF4gY%Z8$V{daTL)f7?-YP7GvH!0{I(B^vG4rc7S~cuRY-J7nu!$ zbwe`;a~CdU_E)e6&O^Ld=kHHd{f@v2_7?VVGx*`-RllpDIUMJY=efI}n~HG&W9tpf+VJ^K_+Ns*qnns* zz~^`-D^PDIRx^76-(Q|g^!yZ}dle1_Pt42r$l-D1_Qf_Fa>iaq4tM{U=;$e)`w_km zxqxT@W5#}FhcMTomI>_7k2C9=ioN6eYtWzfkE-sr3sL7-=dmfgMnC4h3IBEA`$kmP zRnYtgW7L(*o`mkJiA2v$BC7jcRrd$f??UjU>#OVp_OKKDo*rf~zD3Y{iQylv>e?N!>i12I(Y?%WM_j+1LNp7kdp@(@gYCih`!Ijg-OS>7bmLyn`6AAwW~;D9BQy@N-2W}JDad<|z#0;LV23fj`wg?W?pA1)Bc4O= zGmC3{8bL z8iBdnTbadm2ham2VV&|L%&tS;jzaSa_=fe&K16+949$la1B1-wp$70yqEi_E>_mgY zQ-`_Z65I`pQJPuI!D{TG9_*|U%!W@zt>C-I-1XNm>xAyr8AO9KiEckuoqP6`@B%;d zJhMjB#n+fO4E(Emm>rpj`vc7Y#`uHGy5YC!=Q#6OMD6uxj(Ez5c^~{Yf}i}JbuoX( lp?PpN(c~4Zdje6rB*C!3*p17mO#vq2oy{{Y3kp=kgB diff --git a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/twoSamples.MT.g.vcf b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/twoSamples.MT.g.vcf index 086daa58b53..778a787bd51 100644 --- a/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/twoSamples.MT.g.vcf +++ b/src/test/resources/org/broadinstitute/hellbender/tools/walkers/CombineGVCFs/twoSamples.MT.g.vcf @@ -23,10 +23,10 @@ ##FORMAT= ##FORMAT= ##FORMAT= -##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= +##FORMAT= ##FORMAT= ##FORMAT= ##FORMAT= @@ -38,11 +38,9 @@ ##FORMAT= ##FORMAT= ##FORMAT= -##FORMAT= -##FORMAT= ##FORMAT= -##GATKCommandLine= -##GATKCommandLine= +##GATKCommandLine= +##GATKCommandLine= ##GVCFBlock-10--5=minGQ=-10(inclusive),maxGQ=-5(exclusive) ##GVCFBlock-15--10=minGQ=-15(inclusive),maxGQ=-10(exclusive) ##GVCFBlock-20--15=minGQ=-20(inclusive),maxGQ=-15(exclusive) @@ -82,8 +80,6 @@ ##INFO= ##INFO= ##INFO= -##INFO= -##INFO= ##INFO= ##INFO= ##INFO= @@ -177,7 +173,7 @@ ##filtering_status=These calls have been filtered by FilterMutectCalls to label false positives with a list of failed filters and true positives with PASS. ##source=CombineGVCFs ##source=FilterMutectCalls -##tumor_sample=NA19240 +##tumor_sample=NA12878 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12878 NA19240 MT 1 . G . . END=2 GT:DP:MIN_DP:TLOD ./.:81:47:-1.979e+00 ./.:66:47:-1.929e+00 MT 3 . T . . . GT:DP:MIN_DP:TLOD ./.:81:47:-1.979e+00 ./.:121:121:-1.337e+00 @@ -205,16 +201,16 @@ MT 33 . C . . . GT:DP:MIN_DP:TLOD ./.:1435:1360:-2.827e+00 ./.:1436:14 MT 34 . G . . . GT:DP:MIN_DP:TLOD ./.:1435:1360:-2.827e+00 ./.:1486:1486:-2.576e+00 MT 35 . G . . . GT:DP:MIN_DP:TLOD ./.:1576:1576:-1.333e+00 ./.:1550:1550:-2.162e+00 MT 36 . G . . . GT:DP:MIN_DP:TLOD ./.:1614:1614:-2.286e+00 ./.:1589:1589:-3.002e+00 -MT 37 . A G, . base_quality;t_lod CONTQ=93.00;DP=3226 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1508,11,0:1.092e-03,6.494e-04:1519:base_quality;t_lod:27,6,0:575,15999,0:60,60,0:7,0:0.010,0.010,7.242e-03:3.734e-04,4.515e-03,0.995:-2.556e+00,-2.886e+00 ./.:1632,0,0:0.00,0.00:1632:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.199e+00,-2.199e+00 +MT 37 . A G, . base_quality;t_lod CONTQ=93.00;DP=3226 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1508,11,0:1.092e-03,6.494e-04:1519:base_quality;t_lod:27,6,0:575,15999,0:60,60,0:7,0:-2.556e+00,-2.886e+00 ./.:1632,0,0:0.00,0.00:1632:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.199e+00,-2.199e+00 MT 38 . G . . END=39 GT:DP:MIN_DP:TLOD ./.:1554:1534:-3.194e+00 ./.:1717:1688:-3.212e+00 -MT 40 . T G, . t_lod CONTQ=93.00;DP=3496 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:1708,1,0:1.148e-03,5.841e-04:1709:t_lod:28,21,0:562,16148,0:60,60,0:27,0:0|1:40_T_G:40:0.010,0.00,5.851e-04:1.826e-04,5.519e-04,0.999:-1.650e+00,-2.932e+00 ./.:1787,0,0:0.00,0.00:1787:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-1.962e+00,-1.962e+00 +MT 40 . T G, . t_lod CONTQ=93.00;DP=3496 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:1708,1,0:1.148e-03,5.841e-04:1709:t_lod:28,21,0:562,16148,0:60,60,0:27,0:0|1:40_T_G:40:-1.650e+00,-2.932e+00 ./.:1787,0,0:0.00,0.00:1787:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-1.962e+00,-1.962e+00 MT 41 . C . . END=42 GT:DP:MIN_DP:TLOD ./.:1678:1657:-3.231e+00 ./.:1926:1856:-3.281e+00 -MT 43 . C A, . t_lod CONTQ=93.00;DP=3689 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:1832,1,0:1.069e-03,5.447e-04:1833:t_lod:27,27,0:532,16148,0:60,60,0:30,0:0|1:40_T_G:40:0.010,0.00,5.456e-04:1.650e-04,5.440e-04,0.999:-1.710e+00,-2.963e+00 ./.:1926,0,0:0.00,0.00:1926:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.281e+00,-3.281e+00 +MT 43 . C A, . t_lod CONTQ=93.00;DP=3689 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:1832,1,0:1.069e-03,5.447e-04:1833:t_lod:27,27,0:532,16148,0:60,60,0:30,0:0|1:40_T_G:40:-1.710e+00,-2.963e+00 ./.:1926,0,0:0.00,0.00:1926:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.281e+00,-3.281e+00 MT 44 . C . . . GT:DP:MIN_DP:TLOD ./.:1904:1779:-3.311e+00 ./.:1926:1856:-3.281e+00 MT 45 . A . . . GT:DP:MIN_DP:TLOD ./.:1904:1779:-3.311e+00 ./.:2061:2061:-2.931e+00 MT 46 . T . . END=49 GT:DP:MIN_DP:TLOD ./.:1904:1779:-3.311e+00 ./.:2176:2103:-3.315e+00 MT 50 . T . . . GT:DP:MIN_DP:TLOD ./.:1904:1779:-3.311e+00 ./.:2300:2300:-2.803e+00 -MT 51 . T A, . base_quality;t_lod CONTQ=93.00;DP=4523 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:2168,1,0:9.005e-04,4.604e-04:2169:base_quality;t_lod:28,13,0:487,16148,0:60,60,0:38,0:0|1:40_T_G:40:0.010,0.00,4.610e-04:1.363e-04,4.818e-04,0.999:-1.853e+00,-3.036e+00 ./.:2354,0,0:0.00,0.00:2354:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.118e+00,-3.118e+00 +MT 51 . T A, . base_quality;t_lod CONTQ=93.00;DP=4523 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:2168,1,0:9.005e-04,4.604e-04:2169:base_quality;t_lod:28,13,0:487,16148,0:60,60,0:38,0:0|1:40_T_G:40:-1.853e+00,-3.036e+00 ./.:2354,0,0:0.00,0.00:2354:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.118e+00,-3.118e+00 MT 52 . T . . . GT:DP:MIN_DP:TLOD ./.:2432:2432:-2.970e+00 ./.:2439:2415:-2.682e+00 MT 53 . G . . . GT:DP:MIN_DP:TLOD ./.:2486:2486:-2.052e+00 ./.:2439:2415:-2.682e+00 MT 54 . G . . END=55 GT:DP:MIN_DP:TLOD ./.:2528:2487:-3.372e+00 ./.:2512:2478:-3.281e+00 @@ -228,7 +224,7 @@ MT 69 . G . . . GT:DP:MIN_DP:TLOD ./.:3259:3259:-2.751e+00 ./.:3088:28 MT 70 . G . . . GT:DP:MIN_DP:TLOD ./.:3304:3294:-3.264e+00 ./.:3088:2810:-3.496e+00 MT 71 . G . . . GT:DP:MIN_DP:TLOD ./.:3304:3294:-3.264e+00 ./.:3322:3322:-3.502e+00 MT 72 . T . . . GT:DP:MIN_DP:TLOD ./.:3304:3294:-3.264e+00 ./.:3438:3438:-3.382e+00 -MT 73 . A G, . PASS CONTQ=93.00;DP=6253 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3492,0,0:0.00,0.00:3492:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.632e+00,-2.632e+00 ././.:8,2682,0:0.997,3.683e-04:2690:29,28,0:207,466,0:60,60,0:35,0:0.990,0.990,0.997:0.030,0.022,0.948:8376.04,-3.133e+00 +MT 73 . A G, . PASS CONTQ=93.00;DP=6253 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3492,0,0:0.00,0.00:3492:.,.,.:.,.,.:.,.,.:.,.:-2.632e+00,-2.632e+00 ././.:8,2682,0:0.997,3.683e-04:2690:29,28,0:207,466,0:60,60,0:35,0:8376.04,-3.133e+00 MT 74 . T . . . GT:DP:MIN_DP:TLOD ./.:3525:3525:-3.294e+00 ./.:2926:2718:-3.498e+00 MT 75 . G . . . GT:DP:MIN_DP:TLOD ./.:3527:3527:-3.539e+00 ./.:2926:2718:-3.498e+00 MT 76 . C . . END=77 GT:DP:MIN_DP:TLOD ./.:3652:3631:-3.461e+00 ./.:2926:2718:-3.498e+00 @@ -248,7 +244,7 @@ MT 98 . C . . END=99 GT:DP:MIN_DP:TLOD ./.:4740:4662:-3.673e+00 ./.:36 MT 100 . G . . . GT:DP:MIN_DP:TLOD ./.:4740:4662:-3.673e+00 ./.:3697:3697:-3.491e+00 MT 101 . G . . END=105 GT:DP:MIN_DP:TLOD ./.:4740:4662:-3.673e+00 ./.:3819:3716:-3.585e+00 MT 106 . G . . . GT:DP:MIN_DP:TLOD ./.:4959:4959:-3.170e+00 ./.:3819:3716:-3.585e+00 -MT 107 . G T, . t_lod CONTQ=93.00;DP=9026 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:5010,0,0:0.00,0.00:5010:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.929e+00,-2.929e+00 .|.|.:4012,1,0:3.987e-04,2.490e-04:4013:t_lod:28,23,0:447,386,0:60,60,0:51,0:0|1:107_G_T:107:0.00,0.010,2.492e-04:2.556e-04,7.463e-05,1.000:-2.986e+00,-3.303e+00 +MT 107 . G T, . t_lod CONTQ=93.00;DP=9026 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:5010,0,0:0.00,0.00:5010:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.929e+00,-2.929e+00 .|.|.:4012,1,0:3.987e-04,2.490e-04:4013:t_lod:28,23,0:447,386,0:60,60,0:51,0:0|1:107_G_T:107:-2.986e+00,-3.303e+00 MT 108 . A . . . GT:DP:MIN_DP:TLOD ./.:5097:5097:-3.594e+00 ./.:4106:3969:-3.617e+00 MT 109 . G . . . GT:DP:MIN_DP:TLOD ./.:4994:4994:-3.385e+00 ./.:4106:3969:-3.617e+00 MT 110 . C . . . GT:DP:MIN_DP:TLOD ./.:5161:5161:-3.686e+00 ./.:4106:3969:-3.617e+00 @@ -257,124 +253,124 @@ MT 112 . C . . . GT:DP:MIN_DP:TLOD ./.:5272:5272:-3.660e+00 ./.:4106:3 MT 113 . C . . . GT:DP:MIN_DP:TLOD ./.:5358:5358:-3.460e+00 ./.:4106:3969:-3.617e+00 MT 114 . C . . . GT:DP:MIN_DP:TLOD ./.:5434:5393:-3.582e+00 ./.:4258:4258:-3.318e+00 MT 115 . T . . . GT:DP:MIN_DP:TLOD ./.:5434:5393:-3.582e+00 ./.:4294:4294:-3.632e+00 -MT 116 . A T, . base_quality;t_lod CONTQ=93.00;DP=9840 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:5506,0,0:0.00,0.00:5506:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.342e+00,-3.342e+00 .|.|.:4250,3,0:3.717e-04,2.332e-04:4253:base_quality;t_lod:29,2,0:435,386,0:60,60,0:2,0:0|1:107_G_T:107:0.010,0.010,7.054e-04:1.286e-04,2.451e-04,1.000:-3.028e+00,-3.331e+00 +MT 116 . A T, . base_quality;t_lod CONTQ=93.00;DP=9840 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:5506,0,0:0.00,0.00:5506:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.342e+00,-3.342e+00 .|.|.:4250,3,0:3.717e-04,2.332e-04:4253:base_quality;t_lod:29,2,0:435,386,0:60,60,0:2,0:0|1:107_G_T:107:-3.028e+00,-3.331e+00 MT 117 . T . . . GT:DP:MIN_DP:TLOD ./.:5563:5563:-3.718e+00 ./.:4463:4372:-3.659e+00 MT 118 . G . . . GT:DP:MIN_DP:TLOD ./.:5524:5524:-3.444e+00 ./.:4463:4372:-3.659e+00 MT 119 . T . . . GT:DP:MIN_DP:TLOD ./.:5640:5640:-3.692e+00 ./.:4463:4372:-3.659e+00 -MT 120 . C A, . base_quality;t_lod CONTQ=93.00;DP=9618 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5151,2,0:1.936e-04,1.932e-04:5153:base_quality;t_lod:25,14,0:506,16261,0:60,60,0:44,0:0.010,0.00,3.881e-04:6.554e-05,3.820e-04,1.000:-3.412e+00,-3.413e+00 ./.:4463,0,0:0.00,0.00:4463:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.659e+00,-3.659e+00 +MT 120 . C A, . base_quality;t_lod CONTQ=93.00;DP=9618 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5151,2,0:1.936e-04,1.932e-04:5153:base_quality;t_lod:25,14,0:506,16261,0:60,60,0:44,0:-3.412e+00,-3.413e+00 ./.:4463,0,0:0.00,0.00:4463:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.659e+00,-3.659e+00 MT 121 . G . . . GT:DP:MIN_DP:TLOD ./.:5147:5147:-3.707e+00 ./.:4463:4372:-3.659e+00 -MT 122 . C A, . base_quality;t_lod CONTQ=93.00;DP=9696 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5227,4,0:1.907e-04,1.901e-04:5231:base_quality;t_lod:29,11,0:498,16096,0:60,60,0:28,0:0.010,0.00,7.647e-04:6.420e-05,1.379e-03,0.999:-3.419e+00,-3.420e+00 ./.:4463,0,0:0.00,0.00:4463:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.659e+00,-3.659e+00 -MT 123 . A C, . base_quality;t_lod CONTQ=93.00;DP=9852 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5268,0,0:0.00,0.00:5268:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.685e+00,-3.685e+00 ././.:4497,7,0:2.223e-04,2.208e-04:4504:base_quality;t_lod:29,4,0:427,16060,0:60,60,0:42,0:0.010,0.010,1.554e-03:9.358e-05,2.005e-03,0.998:-3.352e+00,-3.355e+00 -MT 124 . G T, . base_quality;t_lod CONTQ=93.00;DP=10029 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5310,1,0:1.885e-04,1.870e-04:5311:base_quality;t_lod:28,12,0:500,411,0:60,60,0:64,0:0.00,0.010,1.883e-04:1.955e-04,5.554e-05,1.000:-3.424e+00,-3.427e+00 ./.:4865,0,0:0.00,0.00:4865:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.697e+00,-3.697e+00 +MT 122 . C A, . base_quality;t_lod CONTQ=93.00;DP=9696 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5227,4,0:1.907e-04,1.901e-04:5231:base_quality;t_lod:29,11,0:498,16096,0:60,60,0:28,0:-3.419e+00,-3.420e+00 ./.:4463,0,0:0.00,0.00:4463:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.659e+00,-3.659e+00 +MT 123 . A C, . base_quality;t_lod CONTQ=93.00;DP=9852 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5268,0,0:0.00,0.00:5268:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.685e+00,-3.685e+00 ././.:4497,7,0:2.223e-04,2.208e-04:4504:base_quality;t_lod:29,4,0:427,16060,0:60,60,0:42,0:-3.352e+00,-3.355e+00 +MT 124 . G T, . base_quality;t_lod CONTQ=93.00;DP=10029 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5310,1,0:1.885e-04,1.870e-04:5311:base_quality;t_lod:28,12,0:500,411,0:60,60,0:64,0:-3.424e+00,-3.427e+00 ./.:4865,0,0:0.00,0.00:4865:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.697e+00,-3.697e+00 MT 125 . T . . END=130 GT:DP:MIN_DP:TLOD ./.:5487:5376:-3.739e+00 ./.:4865:4623:-3.697e+00 -MT 131 . T G, . base_quality;t_lod CONTQ=93.00;DP=10318 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5588,7,0:1.874e-04,1.777e-04:5595:base_quality;t_lod:28,6,0:481,15926,0:60,60,0:38,0:0.010,0.010,1.251e-03:1.098e-04,5.076e-04,0.999:-3.426e+00,-3.449e+00 ./.:4865,0,0:0.00,0.00:4865:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.697e+00,-3.697e+00 +MT 131 . T G, . base_quality;t_lod CONTQ=93.00;DP=10318 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5588,7,0:1.874e-04,1.777e-04:5595:base_quality;t_lod:28,6,0:481,15926,0:60,60,0:38,0:-3.426e+00,-3.449e+00 ./.:4865,0,0:0.00,0.00:4865:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.697e+00,-3.697e+00 MT 132 . C . . END=135 GT:DP:MIN_DP:TLOD ./.:5872:5676:-3.776e+00 ./.:4865:4623:-3.697e+00 -MT 136 . G T, . base_quality;t_lod CONTQ=93.00;DP=10710 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5872,0,0:0.00,0.00:5872:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.776e+00,-3.776e+00 ././.:4949,8,0:2.065e-04,2.008e-04:4957:base_quality;t_lod:28,12,0:417,476,0:60,60,0:17,0:0.010,0.010,1.614e-03:1.079e-04,8.898e-04,0.999:-3.384e+00,-3.396e+00 +MT 136 . G T, . base_quality;t_lod CONTQ=93.00;DP=10710 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5872,0,0:0.00,0.00:5872:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.776e+00,-3.776e+00 ././.:4949,8,0:2.065e-04,2.008e-04:4957:base_quality;t_lod:28,12,0:417,476,0:60,60,0:17,0:-3.384e+00,-3.396e+00 MT 137 . A . . END=140 GT:DP:MIN_DP:TLOD ./.:5872:5676:-3.776e+00 ./.:5204:5154:-3.716e+00 -MT 141 . C A, . base_quality;t_lod CONTQ=93.00;DP=10905 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5872,0,0:0.00,0.00:5872:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.776e+00,-3.776e+00 ././.:5147,2,0:1.934e-04,1.931e-04:5149:base_quality;t_lod:29,8,0:416,8215,0:60,60,0:11,0:0.010,0.00,3.884e-04:6.308e-05,4.163e-04,1.000:-3.412e+00,-3.413e+00 +MT 141 . C A, . base_quality;t_lod CONTQ=93.00;DP=10905 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5872,0,0:0.00,0.00:5872:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.776e+00,-3.776e+00 ././.:5147,2,0:1.934e-04,1.931e-04:5149:base_quality;t_lod:29,8,0:416,8215,0:60,60,0:11,0:-3.412e+00,-3.413e+00 MT 142 . T . . . GT:DP:MIN_DP:TLOD ./.:5872:5676:-3.776e+00 ./.:5344:5344:-3.729e+00 -MT 143 . G A,C, . t_lod CONTQ=93.00;DP=11506 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6073,6,7,0:6.092e-04,2.090e-04,1.635e-04:6086:t_lod:29,29,2,0:456,8242,543,0:60,60,60,0:37,12,0:0.010,0.010,9.870e-04:1.829e-04,1.642e-04,1.000:-2.341e+00,-3.195e+00,-3.309e+00 ././.:5220,8,0,0:9.496e-04,1.902e-04,1.902e-04:5228:t_lod:29,22,0,0:415,300,0,0:60,60,0,0:25,0,0:0.010,0.010,1.530e-03:4.469e-04,1.298e-04,0.999:0.376,-3.420e+00,-3.420e+00 +MT 143 . G A,C, . t_lod CONTQ=93.00;DP=11506 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6073,6,7,0:6.092e-04,2.090e-04,1.635e-04:6086:t_lod:29,29,2,0:456,8242,543,0:60,60,60,0:37,12,0:-2.341e+00,-3.195e+00,-3.309e+00 ././.:5220,8,0,0:9.496e-04,1.902e-04,1.902e-04:5228:t_lod:29,22,0,0:415,300,0,0:60,60,0,0:25,0,0:0.376,-3.420e+00,-3.420e+00 MT 144 . C . . END=145 GT:DP:MIN_DP:TLOD ./.:6275:6144:-3.763e+00 ./.:5462:5441:-3.737e+00 -MT 146 . T C, . t_lod CONTQ=93.00;DP=11546 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6275,0,0:0.00,0.00:6275:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.763e+00,-3.763e+00 ././.:5337,7,0:8.726e-04,1.865e-04:5344:t_lod:28,26,0:412,292,0:60,60,0:15,0:0.010,0.010,1.310e-03:1.689e-04,2.636e-04,1.000:0.105,-3.428e+00 +MT 146 . T C, . t_lod CONTQ=93.00;DP=11546 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6275,0,0:0.00,0.00:6275:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.763e+00,-3.763e+00 ././.:5337,7,0:8.726e-04,1.865e-04:5344:t_lod:28,26,0:412,292,0:60,60,0:15,0:0.105,-3.428e+00 MT 147 . C . . END=149 GT:DP:MIN_DP:TLOD ./.:6275:6144:-3.763e+00 ./.:5581:5579:-3.745e+00 -MT 150 . C T, . PASS CONTQ=93.00;DP=11669 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6275,0,0:0.00,0.00:6275:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.763e+00,-3.763e+00 ././.:24,5409,0:0.997,1.832e-04:5433:28,28,0:274,412,0:60,60,0:38,0:0.990,0.990,0.996:0.026,0.022,0.951:17405.92,-3.436e+00 -MT 151 . C A, . base_quality;t_lod CONTQ=93.00;DP=12159 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6386,4,0:1.561e-04,1.557e-04:6390:base_quality;t_lod:28,13,0:440,8341,0:60,60,0:14,0:0.010,0.010,6.260e-04:1.238e-04,1.191e-04,1.000:-3.505e+00,-3.507e+00 ./.:5664,0,0:0.00,0.00:5664:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.642e+00,-3.642e+00 -MT 152 . T C,A, . PASS CONTQ=93.00;DP=12087 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:7,6417,8,0:0.999,1.562e-04,1.549e-04:6432:29,29,13,0:291,438,16046,0:60,60,60,0:37,23,0:0.990,0.990,0.999:0.028,0.024,0.948:20915.39,-3.329e+00,-3.333e+00 ././.:5,5509,0,0:0.999,1.807e-04,1.807e-04:5514:28,29,0,0:540,409,0,0:60,60,0,0:38,0,0:0.990,0.990,0.999:0.033,0.021,0.946:23971.11,-3.442e+00,-3.442e+00 +MT 150 . C T, . PASS CONTQ=93.00;DP=11669 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6275,0,0:0.00,0.00:6275:.,.,.:.,.,.:.,.,.:.,.:-3.763e+00,-3.763e+00 ././.:24,5409,0:0.997,1.832e-04:5433:28,28,0:274,412,0:60,60,0:38,0:17405.92,-3.436e+00 +MT 151 . C A, . base_quality;t_lod CONTQ=93.00;DP=12159 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6386,4,0:1.561e-04,1.557e-04:6390:base_quality;t_lod:28,13,0:440,8341,0:60,60,0:14,0:-3.505e+00,-3.507e+00 ./.:5664,0,0:0.00,0.00:5664:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.642e+00,-3.642e+00 +MT 152 . T C,A, . PASS CONTQ=93.00;DP=12087 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:7,6417,8,0:0.999,1.562e-04,1.549e-04:6432:29,29,13,0:291,438,16046,0:60,60,60,0:37,23,0:20915.39,-3.329e+00,-3.333e+00 ././.:5,5509,0,0:0.999,1.807e-04,1.807e-04:5514:28,29,0,0:540,409,0,0:60,60,0,0:38,0,0:23971.11,-3.442e+00,-3.442e+00 MT 153 . A . . END=156 GT:DP:MIN_DP:TLOD ./.:6486:6477:-3.814e+00 ./.:5703:5682:-3.749e+00 -MT 157 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12307 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:6546,0,0:1.519e-04,1.519e-04:6546:base_quality;contamination;mapping_quality;t_lod:29,0,0:429,0,0:60,0,0:0,0:0|1:157_T_A:157:0.00,0.00,0.00:4.826e-05,4.803e-05,1.000:-3.517e+00,-3.517e+00 ./.:5703,0,0:0.00,0.00:5703:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.749e+00,-3.749e+00 +MT 157 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12307 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:6546,0,0:1.519e-04,1.519e-04:6546:base_quality;contamination;mapping_quality;t_lod:29,0,0:429,0,0:60,0,0:0,0:0|1:157_T_A:157:-3.517e+00,-3.517e+00 ./.:5703,0,0:0.00,0.00:5703:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.749e+00,-3.749e+00 MT 158 . T . . END=162 GT:DP:MIN_DP:TLOD ./.:6523:6483:-3.765e+00 ./.:5703:5682:-3.749e+00 -MT 163 . G GCA,T, . base_quality;contamination;mapping_quality;t_lod CONTQ=93.00;DP=12365 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:6582,0,0,0:1.510e-04,1.510e-04,1.510e-04:6582:base_quality;contamination;mapping_quality;t_lod:25,0,0,0:419,0,0,0:60,0,0,0:0,0,0:0|1:157_T_A:157:0.00,0.00,0.00:4.745e-05,4.832e-05,1.000:-3.520e+00,-3.520e+00,-3.520e+00 ././.:5523,0,6,0:1.792e-04,1.801e-04,1.792e-04:5529:base_quality;t_lod:25,0,13,0:392,0,484,0:60,0,60,0:0,45,0:.:.:.:0.010,0.010,1.085e-03:4.494e-04,1.061e-04,0.999:-3.446e+00,-3.444e+00,-3.446e+00 +MT 163 . G GCA,T, . base_quality;contamination;mapping_quality;t_lod CONTQ=93.00;DP=12365 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:6582,0,0,0:1.510e-04,1.510e-04,1.510e-04:6582:base_quality;contamination;mapping_quality;t_lod:25,0,0,0:419,0,0,0:60,0,0,0:0,0,0:0|1:157_T_A:157:-3.520e+00,-3.520e+00,-3.520e+00 ././.:5523,0,6,0:1.792e-04,1.801e-04,1.792e-04:5529:base_quality;t_lod:25,0,13,0:392,0,484,0:60,0,60,0:0,45,0:.:.:.:-3.446e+00,-3.444e+00,-3.446e+00 MT 164 . C . . . GT:DP:MIN_DP:TLOD ./.:6517:6510:-3.807e+00 ./.:5721:5721:-3.733e+00 -MT 165 . A C, . base_quality;t_lod CONTQ=93.00;DP=12188 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6517,0,0:0.00,0.00:6517:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 ././.:5506,25,0:2.011e-04,1.796e-04:5531:base_quality;t_lod:28,8,0:390,402,0:60,60,0:28,0:0.010,0.010,4.520e-03:2.760e-04,5.338e-04,0.999:-3.397e+00,-3.445e+00 -MT 166 . C T, . base_quality;t_lod CONTQ=93.00;DP=12324 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6560,3,0:1.739e-04,1.515e-04:6563:base_quality;t_lod:28,12,0:410,16006,0:60,60,0:7,0:0.010,0.010,4.571e-04:7.570e-05,1.932e-04,1.000:-3.457e+00,-3.518e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 -MT 167 . C A, . base_quality;t_lod CONTQ=93.00;DP=12318 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6464,9,0:1.690e-04,1.532e-04:6473:base_quality;t_lod:28,13,0:410,450,0:60,60,0:19,0:0.010,0.010,1.390e-03:2.332e-04,1.572e-04,1.000:-3.471e+00,-3.514e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 +MT 165 . A C, . base_quality;t_lod CONTQ=93.00;DP=12188 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6517,0,0:0.00,0.00:6517:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 ././.:5506,25,0:2.011e-04,1.796e-04:5531:base_quality;t_lod:28,8,0:390,402,0:60,60,0:28,0:-3.397e+00,-3.445e+00 +MT 166 . C T, . base_quality;t_lod CONTQ=93.00;DP=12324 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6560,3,0:1.739e-04,1.515e-04:6563:base_quality;t_lod:28,12,0:410,16006,0:60,60,0:7,0:-3.457e+00,-3.518e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 +MT 167 . C A, . base_quality;t_lod CONTQ=93.00;DP=12318 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6464,9,0:1.690e-04,1.532e-04:6473:base_quality;t_lod:28,13,0:410,450,0:60,60,0:19,0:-3.471e+00,-3.514e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 MT 168 . T . . END=169 GT:DP:MIN_DP:TLOD ./.:6504:6503:-3.809e+00 ./.:5735:5672:-3.756e+00 MT 170 . C . . . GT:DP:MIN_DP:TLOD ./.:6441:6441:-3.334e+00 ./.:5735:5672:-3.756e+00 -MT 171 . G A, . base_quality;t_lod CONTQ=93.00;DP=12289 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6431,5,0:1.579e-04,1.542e-04:6436:base_quality;t_lod:25,12,0:404,394,0:60,60,0:21,0:0.010,0.010,7.769e-04:9.761e-05,2.124e-04,1.000:-3.501e+00,-3.511e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 +MT 171 . G A, . base_quality;t_lod CONTQ=93.00;DP=12289 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6431,5,0:1.579e-04,1.542e-04:6436:base_quality;t_lod:25,12,0:404,394,0:60,60,0:21,0:-3.501e+00,-3.511e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 MT 172 . T . . END=174 GT:DP:MIN_DP:TLOD ./.:6479:6477:-3.781e+00 ./.:5735:5672:-3.756e+00 -MT 175 . A C, . base_quality;t_lod CONTQ=93.00;DP=12264 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6405,10,0:1.625e-04,1.544e-04:6415:base_quality;t_lod:29,8,0:395,385,0:60,60,0:23,0:0.010,0.010,1.559e-03:6.347e-03,6.172e-05,0.994:-3.488e+00,-3.510e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 +MT 175 . A C, . base_quality;t_lod CONTQ=93.00;DP=12264 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6405,10,0:1.625e-04,1.544e-04:6415:base_quality;t_lod:29,8,0:395,385,0:60,60,0:23,0:-3.488e+00,-3.510e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 MT 176 . A . . END=180 GT:DP:MIN_DP:TLOD ./.:6463:6457:-3.811e+00 ./.:5735:5672:-3.756e+00 -MT 181 . A C, . base_quality;t_lod CONTQ=93.00;DP=12236 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6375,8,0:2.074e-04,1.550e-04:6383:base_quality;t_lod:29,14,0:386,375,0:60,60,0:36,0:0.010,0.010,1.253e-03:2.979e-04,1.349e-04,1.000:-3.382e+00,-3.508e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 +MT 181 . A C, . base_quality;t_lod CONTQ=93.00;DP=12236 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6375,8,0:2.074e-04,1.550e-04:6383:base_quality;t_lod:29,14,0:386,375,0:60,60,0:36,0:-3.382e+00,-3.508e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 MT 182 . C . . . GT:DP:MIN_DP:TLOD ./.:6426:6426:-3.808e+00 ./.:5735:5672:-3.756e+00 -MT 183 . A T, . base_quality;t_lod CONTQ=93.00;DP=12226 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6368,1,0:1.554e-04,1.553e-04:6369:base_quality;t_lod:29,13,0:383,419,0:60,60,0:70,0:0.00,0.010,1.570e-04:1.259e-04,5.312e-05,1.000:-3.507e+00,-3.508e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 +MT 183 . A T, . base_quality;t_lod CONTQ=93.00;DP=12226 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6368,1,0:1.554e-04,1.553e-04:6369:base_quality;t_lod:29,13,0:383,419,0:60,60,0:70,0:-3.507e+00,-3.508e+00 ./.:5735,0,0:0.00,0.00:5735:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 MT 184 . G . . . GT:DP:MIN_DP:TLOD ./.:6436:6436:-3.797e+00 ./.:5735:5672:-3.756e+00 -MT 185 . G T,A, . base_quality;t_lod CONTQ=93.00;DP=12274 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6359,5,3,0:1.701e-04,1.735e-04,1.557e-04:6367:base_quality;t_lod:28,13,11,0:380,314,615,0:60,60,60,0:17,33,0:0.010,0.010,4.715e-04:1.606e-04,8.936e-05,1.000:-3.292e+00,-3.283e+00,-3.330e+00 ././.:5579,5,0,0:1.918e-04,1.774e-04,1.774e-04:5584:base_quality;t_lod:28,12,0,0:364,331,0,0:60,60,0,0:23,0,0:0.010,0.010,8.954e-04:2.439e-04,1.215e-04,1.000:-3.417e+00,-3.450e+00,-3.450e+00 -MT 186 . C T,A, . base_quality;t_lod CONTQ=93.00;DP=12277 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6360,4,1,0:1.921e-04,1.553e-04,1.541e-04:6365:base_quality;t_lod:25,13,14,0:378,8160,16006,0:60,60,60,0:20,22,0:0.010,0.010,6.285e-04:6.522e-05,3.740e-04,1.000:-3.233e+00,-3.332e+00,-3.335e+00 ./.:5738,0,0,0:0.00,0.00,0.00:5738:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.554e+00,-3.554e+00,-3.554e+00 -MT 187 . G T, . base_quality;t_lod CONTQ=93.00;DP=12698 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 ././.:5577,2,0:1.787e-04,1.778e-04:5579:base_quality;t_lod:25,5,0:362,8166,0:60,60,0:20,0:0.010,0.00,3.585e-04:5.687e-05,4.131e-04,1.000:-3.447e+00,-3.449e+00 +MT 185 . G T,A, . base_quality;t_lod CONTQ=93.00;DP=12274 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6359,5,3,0:1.701e-04,1.735e-04,1.557e-04:6367:base_quality;t_lod:28,13,11,0:380,314,615,0:60,60,60,0:17,33,0:-3.292e+00,-3.283e+00,-3.330e+00 ././.:5579,5,0,0:1.918e-04,1.774e-04,1.774e-04:5584:base_quality;t_lod:28,12,0,0:364,331,0,0:60,60,0,0:23,0,0:-3.417e+00,-3.450e+00,-3.450e+00 +MT 186 . C T,A, . base_quality;t_lod CONTQ=93.00;DP=12277 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6360,4,1,0:1.921e-04,1.553e-04,1.541e-04:6365:base_quality;t_lod:25,13,14,0:378,8160,16006,0:60,60,60,0:20,22,0:-3.233e+00,-3.332e+00,-3.335e+00 ./.:5738,0,0,0:0.00,0.00,0.00:5738:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.554e+00,-3.554e+00,-3.554e+00 +MT 187 . G T, . base_quality;t_lod CONTQ=93.00;DP=12698 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 ././.:5577,2,0:1.787e-04,1.778e-04:5579:base_quality;t_lod:25,5,0:362,8166,0:60,60,0:20,0:-3.447e+00,-3.449e+00 MT 188 . A . . . GT:DP:MIN_DP:TLOD ./.:7093:6958:-3.819e+00 ./.:5762:5762:-3.748e+00 -MT 189 . A C,G, . t_lod CONTQ=93.00;DP=12723 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7093,0,0,0:0.00,0.00,0.00:7093:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00,-3.819e+00 ./././.:5584,14,2,0:1.973e-04,2.855e-04,1.768e-04:5600:t_lod:29,4,29,0:359,390,303,0:60,60,60,0:22,41,0:0.00,0.010,3.580e-04:4.305e-04,5.582e-05,1.000:-3.228e+00,-3.045e+00,-3.275e+00 -MT 190 . C A, . base_quality;t_lod CONTQ=93.00;DP=12732 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 ././.:5602,5,0:1.839e-04,1.764e-04:5607:base_quality;t_lod:28,2,0:358,332,0:60,60,0:7,0:0.010,0.010,8.917e-04:1.256e-04,2.299e-04,1.000:-3.435e+00,-3.452e+00 +MT 189 . A C,G, . t_lod CONTQ=93.00;DP=12723 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7093,0,0,0:0.00,0.00,0.00:7093:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.819e+00,-3.819e+00,-3.819e+00 ./././.:5584,14,2,0:1.973e-04,2.855e-04,1.768e-04:5600:t_lod:29,4,29,0:359,390,303,0:60,60,60,0:22,41,0:-3.228e+00,-3.045e+00,-3.275e+00 +MT 190 . C A, . base_quality;t_lod CONTQ=93.00;DP=12732 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 ././.:5602,5,0:1.839e-04,1.764e-04:5607:base_quality;t_lod:28,2,0:358,332,0:60,60,0:7,0:-3.435e+00,-3.452e+00 MT 191 . A . . . GT:DP:MIN_DP:TLOD ./.:7093:6958:-3.819e+00 ./.:5786:5786:-3.698e+00 MT 192 . T . . . GT:DP:MIN_DP:TLOD ./.:7092:7092:-3.491e+00 ./.:5786:5786:-3.698e+00 MT 193 . A . . . GT:DP:MIN_DP:TLOD ./.:7085:7069:-3.727e+00 ./.:5786:5786:-3.698e+00 -MT 194 . C CCTCCTAAAGTGTG, . t_lod CONTQ=93.00;DP=12849 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.727e+00,-3.727e+00 .|.|.:5611,4,0:1.763e-04,1.758e-04:5615:t_lod:28,22,0:347,401,0:60,60,0:0,0:0|1:194_C_CCTCCTAAAGTGTG:194:0.00,0.010,7.124e-04:1.511e-03,5.710e-05,0.998:-3.453e+00,-3.454e+00 -MT 195 . T C,A, . PASS CONTQ=93.00;DP=12881 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7101,0,0,0:0.00,0.00,0.00:7101:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-1.060e+00,-1.060e+00,-1.060e+00 ./././.:19,5544,3,0:0.998,1.763e-04,1.759e-04:5566:28,29,12,0:347,348,275,0:60,60,60,0:37,12,0:0.990,0.990,0.997:0.016,0.043,0.942:18094.06,-3.277e+00,-3.278e+00 -MT 196 . T TAATTA, . base_quality;t_lod CONTQ=93.00;DP=12856 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.824e+00,-3.824e+00 .|.|.:5691,6,0:1.750e-04,1.742e-04:5697:base_quality;t_lod:29,0,0:347,367,0:60,60,0:0,0:0|1:194_C_CCTCCTAAAGTGTG:194:0.010,0.010,1.053e-03:1.051e-03,7.677e-05,0.999:-3.456e+00,-3.458e+00 +MT 194 . C CCTCCTAAAGTGTG, . t_lod CONTQ=93.00;DP=12849 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.727e+00,-3.727e+00 .|.|.:5611,4,0:1.763e-04,1.758e-04:5615:t_lod:28,22,0:347,401,0:60,60,0:0,0:0|1:194_C_CCTCCTAAAGTGTG:194:-3.453e+00,-3.454e+00 +MT 195 . T C,A, . PASS CONTQ=93.00;DP=12881 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7101,0,0,0:0.00,0.00,0.00:7101:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-1.060e+00,-1.060e+00,-1.060e+00 ./././.:19,5544,3,0:0.998,1.763e-04,1.759e-04:5566:28,29,12,0:347,348,275,0:60,60,60,0:37,12,0:18094.06,-3.277e+00,-3.278e+00 +MT 196 . T TAATTA, . base_quality;t_lod CONTQ=93.00;DP=12856 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.824e+00,-3.824e+00 .|.|.:5691,6,0:1.750e-04,1.742e-04:5697:base_quality;t_lod:29,0,0:347,367,0:60,60,0:0,0:0|1:194_C_CCTCCTAAAGTGTG:194:-3.456e+00,-3.458e+00 MT 197 . A . . . GT:DP:MIN_DP:TLOD ./.:7107:7058:-3.824e+00 ./.:5833:5833:-3.736e+00 -MT 198 . C T, . base_quality;t_lod CONTQ=93.00;DP=12868 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.824e+00,-3.824e+00 .|.|.:5690,1,0:1.742e-04,1.740e-04:5691:base_quality;t_lod:28,2,0:347,344,0:60,60,0:0,0:0|1:194_C_CCTCCTAAAGTGTG:194:0.010,0.00,1.757e-04:5.440e-05,1.655e-04,1.000:-3.458e+00,-3.458e+00 -MT 199 . T C, . t_lod CONTQ=93.00;DP=12877 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.824e+00,-3.824e+00 .|.|.:5815,2,0:4.888e-04,1.719e-04:5817:t_lod:29,29,0:346,297,0:60,60,0:16,0:0|1:199_T_C:199:0.010,0.010,3.438e-04:1.107e-04,1.201e-04,1.000:-1.695e+00,-3.464e+00 -MT 200 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12882 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.824e+00,-3.824e+00 ././.:5747,0,0:1.730e-04,1.730e-04:5747:base_quality;contamination;mapping_quality;t_lod:29,0,0:346,0,0:60,0,0:0,0:0.00,0.00,0.00:5.346e-05,5.626e-05,1.000:-3.461e+00,-3.461e+00 -MT 201 . A C, . base_quality;t_lod CONTQ=93.00;DP=12924 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7097,0,0:0.00,0.00:7097:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.985e+00,-2.985e+00 ././.:5657,13,0:1.766e-04,1.748e-04:5670:base_quality;t_lod:29,6,0:344,474,0:60,60,0:27,0:0.010,0.010,2.293e-03:3.111e-04,2.314e-04,0.999:-3.452e+00,-3.457e+00 +MT 198 . C T, . base_quality;t_lod CONTQ=93.00;DP=12868 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.824e+00,-3.824e+00 .|.|.:5690,1,0:1.742e-04,1.740e-04:5691:base_quality;t_lod:28,2,0:347,344,0:60,60,0:0,0:0|1:194_C_CCTCCTAAAGTGTG:194:-3.458e+00,-3.458e+00 +MT 199 . T C, . t_lod CONTQ=93.00;DP=12877 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.824e+00,-3.824e+00 .|.|.:5815,2,0:4.888e-04,1.719e-04:5817:t_lod:29,29,0:346,297,0:60,60,0:16,0:0|1:199_T_C:199:-1.695e+00,-3.464e+00 +MT 200 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12882 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.824e+00,-3.824e+00 ././.:5747,0,0:1.730e-04,1.730e-04:5747:base_quality;contamination;mapping_quality;t_lod:29,0,0:346,0,0:60,0,0:0,0:-3.461e+00,-3.461e+00 +MT 201 . A C, . base_quality;t_lod CONTQ=93.00;DP=12924 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7097,0,0:0.00,0.00:7097:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.985e+00,-2.985e+00 ././.:5657,13,0:1.766e-04,1.748e-04:5670:base_quality;t_lod:29,6,0:344,474,0:60,60,0:27,0:-3.452e+00,-3.457e+00 MT 202 . A . . . GT:DP:MIN_DP:TLOD ./.:7077:7053:-3.721e+00 ./.:5838:5838:-3.641e+00 -MT 203 . G T, . base_quality;t_lod CONTQ=93.00;DP=12891 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7077,0,0:0.00,0.00:7077:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.721e+00,-3.721e+00 ././.:5669,6,0:1.770e-04,1.745e-04:5675:base_quality;t_lod:28,12,0:343,319,0:60,60,0:20,0:0.010,0.010,1.057e-03:3.559e-04,1.154e-04,1.000:-3.451e+00,-3.457e+00 -MT 204 . T C, . t_lod CONTQ=93.00;DP=12895 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7077,0,0:0.00,0.00:7077:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.721e+00,-3.721e+00 .|.|.:5754,2,0:4.930e-04,1.726e-04:5756:t_lod:29,23,0:343,297,0:60,60,0:21,0:0|1:199_T_C:199:0.010,0.010,3.475e-04:1.124e-04,1.202e-04,1.000:-1.685e+00,-3.462e+00 +MT 203 . G T, . base_quality;t_lod CONTQ=93.00;DP=12891 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7077,0,0:0.00,0.00:7077:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.721e+00,-3.721e+00 ././.:5669,6,0:1.770e-04,1.745e-04:5675:base_quality;t_lod:28,12,0:343,319,0:60,60,0:20,0:-3.451e+00,-3.457e+00 +MT 204 . T C, . t_lod CONTQ=93.00;DP=12895 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7077,0,0:0.00,0.00:7077:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.721e+00,-3.721e+00 .|.|.:5754,2,0:4.930e-04,1.726e-04:5756:t_lod:29,23,0:343,297,0:60,60,0:21,0:0|1:199_T_C:199:-1.685e+00,-3.462e+00 MT 205 . G . . . GT:DP:MIN_DP:TLOD ./.:7077:7053:-3.721e+00 ./.:5861:5845:-3.764e+00 MT 206 . T . . END=207 GT:DP:MIN_DP:TLOD ./.:7087:7051:-3.492e+00 ./.:5861:5845:-3.764e+00 MT 208 . T . . . GT:DP:MIN_DP:TLOD ./.:7118:7094:-3.802e+00 ./.:5861:5845:-3.764e+00 -MT 209 . T G, . base_quality;t_lod CONTQ=93.00;DP=12968 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7118,0,0:0.00,0.00:7118:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.802e+00,-3.802e+00 ././.:5788,2,0:1.725e-04,1.717e-04:5790:base_quality;t_lod:29,15,0:341,8164,0:60,60,0:33,0:0.010,0.00,3.454e-04:5.262e-05,4.444e-04,1.000:-3.462e+00,-3.464e+00 -MT 210 . A C, . base_quality;t_lod CONTQ=93.00;DP=12975 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7118,0,0:0.00,0.00:7118:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.802e+00,-3.802e+00 ././.:5714,12,0:2.498e-04,1.730e-04:5726:base_quality;t_lod:29,10,0:340,309,0:60,60,0:32,0:0.010,0.010,2.096e-03:4.863e-03,8.109e-05,0.995:-3.300e+00,-3.461e+00 +MT 209 . T G, . base_quality;t_lod CONTQ=93.00;DP=12968 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7118,0,0:0.00,0.00:7118:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.802e+00,-3.802e+00 ././.:5788,2,0:1.725e-04,1.717e-04:5790:base_quality;t_lod:29,15,0:341,8164,0:60,60,0:33,0:-3.462e+00,-3.464e+00 +MT 210 . A C, . base_quality;t_lod CONTQ=93.00;DP=12975 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7118,0,0:0.00,0.00:7118:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.802e+00,-3.802e+00 ././.:5714,12,0:2.498e-04,1.730e-04:5726:base_quality;t_lod:29,10,0:340,309,0:60,60,0:32,0:-3.300e+00,-3.461e+00 MT 211 . A . . END=213 GT:DP:MIN_DP:TLOD ./.:7118:7094:-3.802e+00 ./.:5895:5890:-3.769e+00 -MT 214 . A C, . base_quality;t_lod CONTQ=93.00;DP=13003 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7118,0,0:0.00,0.00:7118:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.802e+00,-3.802e+00 ././.:5814,2,0:1.711e-04,1.708e-04:5816:base_quality;t_lod:29,6,0:338,311,0:60,60,0:15,0:0.010,0.00,3.439e-04:5.183e-05,4.557e-04,0.999:-3.466e+00,-3.467e+00 -MT 215 . A C,T, . t_lod CONTQ=93.00;DP=13010 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7118,0,0,0:0.00,0.00,0.00:7118:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.802e+00,-3.802e+00,-3.802e+00 ./././.:5822,2,0,0:1.804e-04,1.705e-04,1.705e-04:5824:t_lod:29,20,0,0:339,312,0,0:60,60,0,0:22,0,0:0.010,0.010,3.434e-04:1.083e-04,1.228e-04,1.000:-3.267e+00,-3.291e+00,-3.291e+00 +MT 214 . A C, . base_quality;t_lod CONTQ=93.00;DP=13003 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7118,0,0:0.00,0.00:7118:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.802e+00,-3.802e+00 ././.:5814,2,0:1.711e-04,1.708e-04:5816:base_quality;t_lod:29,6,0:338,311,0:60,60,0:15,0:-3.466e+00,-3.467e+00 +MT 215 . A C,T, . t_lod CONTQ=93.00;DP=13010 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7118,0,0,0:0.00,0.00,0.00:7118:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.802e+00,-3.802e+00,-3.802e+00 ./././.:5822,2,0,0:1.804e-04,1.705e-04,1.705e-04:5824:t_lod:29,20,0,0:339,312,0,0:60,60,0,0:22,0,0:-3.267e+00,-3.291e+00,-3.291e+00 MT 216 . T . . END=217 GT:DP:MIN_DP:TLOD ./.:7114:7111:-3.414e+00 ./.:5926:5922:-3.772e+00 MT 218 . A . . . GT:DP:MIN_DP:TLOD ./.:7117:7117:-3.575e+00 ./.:5926:5922:-3.772e+00 -MT 219 . A C, . base_quality;t_lod CONTQ=93.00;DP=13041 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7110,0,0:0.00,0.00:7110:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.417e+00,-3.417e+00 ././.:5754,21,0:1.872e-04,1.718e-04:5775:base_quality;t_lod:29,8,0:337,404,0:60,60,0:28,0:0.010,0.010,3.636e-03:1.184e-04,2.658e-03,0.997:-3.428e+00,-3.464e+00 +MT 219 . A C, . base_quality;t_lod CONTQ=93.00;DP=13041 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7110,0,0:0.00,0.00:7110:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.417e+00,-3.417e+00 ././.:5754,21,0:1.872e-04,1.718e-04:5775:base_quality;t_lod:29,8,0:337,404,0:60,60,0:28,0:-3.428e+00,-3.464e+00 MT 220 . T . . END=222 GT:DP:MIN_DP:TLOD ./.:7109:7046:-3.831e+00 ./.:5909:5903:-3.770e+00 MT 223 . T . . . GT:DP:MIN_DP:TLOD ./.:7109:7046:-3.831e+00 ./.:5931:5931:-3.459e+00 -MT 224 . T G, . base_quality;t_lod CONTQ=93.00;DP=12998 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 ././.:5773,6,0:1.723e-04,1.711e-04:5779:base_quality;t_lod:29,9,0:334,287,0:60,60,0:37,0:0.010,0.010,1.038e-03:3.129e-04,1.212e-04,1.000:-3.463e+00,-3.466e+00 -MT 225 . G T, . base_quality;t_lod CONTQ=93.00;DP=12993 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 ././.:5788,3,0:1.764e-04,1.711e-04:5791:base_quality;t_lod:28,11,0:333,429,0:60,60,0:26,0:0.00,0.010,5.180e-04:6.661e-04,5.814e-05,0.999:-3.452e+00,-3.466e+00 +MT 224 . T G, . base_quality;t_lod CONTQ=93.00;DP=12998 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.831e+00,-3.831e+00 ././.:5773,6,0:1.723e-04,1.711e-04:5779:base_quality;t_lod:29,9,0:334,287,0:60,60,0:37,0:-3.463e+00,-3.466e+00 +MT 225 . G T, . base_quality;t_lod CONTQ=93.00;DP=12993 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.831e+00,-3.831e+00 ././.:5788,3,0:1.764e-04,1.711e-04:5791:base_quality;t_lod:28,11,0:333,429,0:60,60,0:26,0:-3.452e+00,-3.466e+00 MT 226 . T . . . GT:DP:MIN_DP:TLOD ./.:7109:7046:-3.831e+00 ./.:5954:5954:-3.404e+00 MT 227 . A . . . GT:DP:MIN_DP:TLOD ./.:7109:7046:-3.831e+00 ./.:5956:5956:-3.775e+00 -MT 228 . G T, . base_quality;t_lod CONTQ=93.00;DP=13011 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 ././.:5792,7,0:2.147e-04,1.707e-04:5799:base_quality;t_lod:28,11,0:333,415,0:60,60,0:18,0:0.010,0.010,1.207e-03:1.469e-03,7.641e-05,0.998:-3.359e+00,-3.467e+00 -MT 229 . G A,C,T, . base_quality;t_lod CONTQ=93.00;DP=11863 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././././.:4715,4,8,9,0:2.102e-04,2.111e-04,3.666e-04,2.094e-04:4736:base_quality;t_lod:28,13,7,13,0:343,323,708,403,0:60,60,60,60,0:8,20,41,0:0.00,0.010,1.905e-03:0.416,3.171e-05,0.584:-3.076e+00,-3.074e+00,-2.794e+00,-3.077e+00 ./.:7062,0,0,0,0:0.00,0.00,0.00,0.00:7062:PASS:.,.,.,.,.:.,.,.,.,.:.,.,.,.,.:.,.,.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00,-3.804e+00,-3.804e+00 +MT 228 . G T, . base_quality;t_lod CONTQ=93.00;DP=13011 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.831e+00,-3.831e+00 ././.:5792,7,0:2.147e-04,1.707e-04:5799:base_quality;t_lod:28,11,0:333,415,0:60,60,0:18,0:-3.359e+00,-3.467e+00 +MT 229 . G A,C,T, . base_quality;t_lod CONTQ=93.00;DP=11863 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././././.:4715,4,8,9,0:2.102e-04,2.111e-04,3.666e-04,2.094e-04:4736:base_quality;t_lod:28,13,7,13,0:343,323,708,403,0:60,60,60,60,0:8,20,41,0:-3.076e+00,-3.074e+00,-2.794e+00,-3.077e+00 ./.:7062,0,0,0,0:0.00,0.00,0.00,0.00:7062:PASS:.,.,.,.,.:.,.,.,.,.:.,.,.,.,.:.,.,.,.:-3.804e+00,-3.804e+00,-3.804e+00,-3.804e+00 MT 230 . A . . . GT:DP:MIN_DP:TLOD ./.:4764:4764:-3.605e+00 ./.:7062:6996:-3.804e+00 -MT 231 . C A, . base_quality;t_lod CONTQ=93.00;DP=11797 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4681,4,0:2.911e-04,2.116e-04:4685:base_quality;t_lod:28,7,0:342,266,0:60,60,0:12,0:0.010,0.010,8.538e-04:2.971e-04,1.208e-04,1.000:-3.210e+00,-3.373e+00 ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 +MT 231 . C A, . base_quality;t_lod CONTQ=93.00;DP=11797 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4681,4,0:2.911e-04,2.116e-04:4685:base_quality;t_lod:28,7,0:342,266,0:60,60,0:12,0:-3.210e+00,-3.373e+00 ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 MT 232 . A . . . GT:DP:MIN_DP:TLOD ./.:4710:4710:-3.667e+00 ./.:7062:6996:-3.804e+00 MT 233 . T . . . GT:DP:MIN_DP:TLOD ./.:4661:4661:-3.425e+00 ./.:7062:6996:-3.804e+00 -MT 234 . A C, . base_quality;t_lod CONTQ=93.00;DP=11717 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4590,6,0:2.596e-04,2.155e-04:4596:base_quality;t_lod:29,15,0:339,382,0:60,60,0:12,0:0.010,0.010,1.305e-03:1.157e-03,9.456e-05,0.999:-3.285e+00,-3.366e+00 ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 +MT 234 . A C, . base_quality;t_lod CONTQ=93.00;DP=11717 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4590,6,0:2.596e-04,2.155e-04:4596:base_quality;t_lod:29,15,0:339,382,0:60,60,0:12,0:-3.285e+00,-3.366e+00 ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 MT 235 . A . . END=241 GT:DP:MIN_DP:TLOD ./.:4496:4359:-3.659e+00 ./.:7062:6996:-3.804e+00 -MT 242 . C A, . base_quality;t_lod CONTQ=93.00;DP=8969 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4496,0,0:0.00,0.00:4496:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.659e+00,-3.659e+00 ././.:4477,9,0:4.325e-04,2.208e-04:4486:base_quality;t_lod:28,15,0:328,391,0:60,60,0:15,0:0.010,0.010,2.006e-03:5.264e-03,8.799e-05,0.995:-3.011e+00,-3.355e+00 +MT 242 . C A, . base_quality;t_lod CONTQ=93.00;DP=8969 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4496,0,0:0.00,0.00:4496:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.659e+00,-3.659e+00 ././.:4477,9,0:4.325e-04,2.208e-04:4486:base_quality;t_lod:28,15,0:328,391,0:60,60,0:15,0:-3.011e+00,-3.355e+00 MT 243 . A . . END=244 GT:DP:MIN_DP:TLOD ./.:4496:4359:-3.659e+00 ./.:4519:4440:-3.634e+00 MT 245 . T . . . GT:DP:MIN_DP:TLOD ./.:4313:4313:-3.430e+00 ./.:4519:4440:-3.634e+00 MT 246 . T . . . GT:DP:MIN_DP:TLOD ./.:4267:4267:-3.540e+00 ./.:4519:4440:-3.634e+00 -MT 247 . G T, . base_quality;t_lod CONTQ=93.00;DP=8797 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4216,7,0:2.364e-04,2.346e-04:4223:base_quality;t_lod:28,12,0:329,411,0:60,60,0:10,0:0.00,0.010,1.658e-03:0.179,4.755e-05,0.821:-3.325e+00,-3.329e+00 ./.:4519,0,0:0.00,0.00:4519:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.634e+00,-3.634e+00 +MT 247 . G T, . base_quality;t_lod CONTQ=93.00;DP=8797 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4216,7,0:2.364e-04,2.346e-04:4223:base_quality;t_lod:28,12,0:329,411,0:60,60,0:10,0:-3.325e+00,-3.329e+00 ./.:4519,0,0:0.00,0.00:4519:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.634e+00,-3.634e+00 MT 248 . A . . . GT:DP:MIN_DP:TLOD ./.:4202:4202:-3.612e+00 ./.:4519:4440:-3.634e+00 -MT 249 . A C, . base_quality;t_lod CONTQ=93.00;DP=8615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4177,0,0:0.00,0.00:4177:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.198e+00,-3.198e+00 ././.:4292,20,0:2.352e-04,2.302e-04:4312:base_quality;t_lod:29,7,0:326,369,0:60,60,0:22,0:0.010,0.010,4.638e-03:1.593e-04,7.496e-03,0.992:-3.328e+00,-3.337e+00 -MT 250 . T G, . base_quality;t_lod CONTQ=93.00;DP=8643 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4135,10,0:2.418e-04,2.391e-04:4145:base_quality;t_lod:29,7,0:328,462,0:60,60,0:14,0:0.010,0.010,2.413e-03:4.759e-04,2.347e-04,0.999:-3.316e+00,-3.320e+00 ./.:4380,0,0:0.00,0.00:4380:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.127e+00,-3.127e+00 -MT 251 . G T, . base_quality;t_lod CONTQ=93.00;DP=8637 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:4138,5,0:2.406e-04,2.393e-04:4143:base_quality;t_lod:28,2,0:328,311,0:60,60,0:0,0:0|1:251_G_T:251:0.010,0.010,1.207e-03:3.524e-03,7.597e-05,0.996:-3.318e+00,-3.320e+00 ././.:4274,8,0:3.233e-04,2.319e-04:4282:base_quality;t_lod:27,13,0:325,373,0:60,60,0:22,0:.:.:.:0.010,0.010,1.868e-03:0.105,5.597e-05,0.895:-3.187e+00,-3.334e+00 +MT 249 . A C, . base_quality;t_lod CONTQ=93.00;DP=8615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4177,0,0:0.00,0.00:4177:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.198e+00,-3.198e+00 ././.:4292,20,0:2.352e-04,2.302e-04:4312:base_quality;t_lod:29,7,0:326,369,0:60,60,0:22,0:-3.328e+00,-3.337e+00 +MT 250 . T G, . base_quality;t_lod CONTQ=93.00;DP=8643 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4135,10,0:2.418e-04,2.391e-04:4145:base_quality;t_lod:29,7,0:328,462,0:60,60,0:14,0:-3.316e+00,-3.320e+00 ./.:4380,0,0:0.00,0.00:4380:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.127e+00,-3.127e+00 +MT 251 . G T, . base_quality;t_lod CONTQ=93.00;DP=8637 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:4138,5,0:2.406e-04,2.393e-04:4143:base_quality;t_lod:28,2,0:328,311,0:60,60,0:0,0:0|1:251_G_T:251:-3.318e+00,-3.320e+00 ././.:4274,8,0:3.233e-04,2.319e-04:4282:base_quality;t_lod:27,13,0:325,373,0:60,60,0:22,0:.:.:.:-3.187e+00,-3.334e+00 MT 252 . T . . . GT:DP:MIN_DP:TLOD ./.:4097:4097:-3.485e+00 ./.:4324:4324:-3.617e+00 -MT 253 . C A, . base_quality;t_lod CONTQ=93.00;DP=8507 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4056,4,0:2.493e-04,2.438e-04:4060:base_quality;t_lod:28,12,0:325,279,0:60,60,0:37,0:0.010,0.010,9.852e-04:1.533e-03,8.159e-05,0.998:-3.302e+00,-3.312e+00 ./.:4327,0,0:0.00,0.00:4327:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.421e+00,-3.421e+00 +MT 253 . C A, . base_quality;t_lod CONTQ=93.00;DP=8507 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4056,4,0:2.493e-04,2.438e-04:4060:base_quality;t_lod:28,12,0:325,279,0:60,60,0:37,0:-3.302e+00,-3.312e+00 ./.:4327,0,0:0.00,0.00:4327:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.421e+00,-3.421e+00 MT 254 . T . . . GT:DP:MIN_DP:TLOD ./.:4058:4058:-3.481e+00 ./.:4294:4294:-3.620e+00 MT 255 . G . . . GT:DP:MIN_DP:TLOD ./.:3906:3829:-3.601e+00 ./.:4246:4246:-3.347e+00 MT 256 . C . . END=259 GT:DP:MIN_DP:TLOD ./.:3906:3829:-3.601e+00 ./.:4197:4155:-3.609e+00 -MT 260 . G T, . base_quality;t_lod CONTQ=93.00;DP=8046 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3906,0,0:0.00,0.00:3906:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.601e+00,-3.601e+00 ././.:4070,6,0:2.867e-04,2.427e-04:4076:base_quality;t_lod:28,12,0:321,320,0:60,60,0:27,0:0.00,0.010,1.472e-03:0.252,4.051e-05,0.748:-3.239e+00,-3.314e+00 +MT 260 . G T, . base_quality;t_lod CONTQ=93.00;DP=8046 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3906,0,0:0.00,0.00:3906:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.601e+00,-3.601e+00 ././.:4070,6,0:2.867e-04,2.427e-04:4076:base_quality;t_lod:28,12,0:321,320,0:60,60,0:27,0:-3.239e+00,-3.314e+00 MT 261 . C . . . GT:DP:MIN_DP:TLOD ./.:3906:3829:-3.601e+00 ./.:4143:4135:-3.616e+00 MT 262 . C . . . GT:DP:MIN_DP:TLOD ./.:3875:3875:-3.494e+00 ./.:4143:4135:-3.616e+00 -MT 263 . A G, . PASS CONTQ=93.00;DP=8091 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3,3826,0:0.999,2.591e-04:3829:14,28,0:162,323,0:60,60,0:32,0:0.990,0.990,0.999:0.022,0.033,0.945:11637.51,-3.285e+00 ././.:0,4016,0:1.00,2.469e-04:4016:0,28,0:0,322,0:0,60,0:32,0:0.990,0.990,1.00:0.026,0.028,0.946:12281.25,-3.306e+00 +MT 263 . A G, . PASS CONTQ=93.00;DP=8091 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3,3826,0:0.999,2.591e-04:3829:14,28,0:162,323,0:60,60,0:32,0:11637.51,-3.285e+00 ././.:0,4016,0:1.00,2.469e-04:4016:0,28,0:0,322,0:0,60,0:32,0:12281.25,-3.306e+00 MT 264 . C . . . GT:DP:MIN_DP:TLOD ./.:3809:3809:-3.581e+00 ./.:4071:4071:-3.606e+00 MT 265 . T . . . GT:DP:MIN_DP:TLOD ./.:3785:3785:-3.492e+00 ./.:4034:4019:-3.455e+00 MT 266 . T . . . GT:DP:MIN_DP:TLOD ./.:3756:3756:-3.565e+00 ./.:4034:4019:-3.455e+00 -MT 267 . T C, . base_quality;t_lod CONTQ=93.00;DP=7753 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3717,0,0:0.00,0.00:3717:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.301e+00,-3.301e+00 ././.:3885,18,0:2.638e-04,2.539e-04:3903:base_quality;t_lod:28,8,0:320,368,0:60,60,0:24,0:0.010,0.010,4.612e-03:3.057e-04,1.043e-03,0.999:-3.278e+00,-3.294e+00 +MT 267 . T C, . base_quality;t_lod CONTQ=93.00;DP=7753 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3717,0,0:0.00,0.00:3717:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.301e+00,-3.301e+00 ././.:3885,18,0:2.638e-04,2.539e-04:3903:base_quality;t_lod:28,8,0:320,368,0:60,60,0:24,0:-3.278e+00,-3.294e+00 MT 268 . C . . . GT:DP:MIN_DP:TLOD ./.:3732:3732:-3.526e+00 ./.:3988:3988:-3.584e+00 MT 269 . C . . . GT:DP:MIN_DP:TLOD ./.:3715:3715:-3.031e+00 ./.:3964:3964:-3.423e+00 MT 270 . A . . END=271 GT:DP:MIN_DP:TLOD ./.:3671:3662:-3.562e+00 ./.:3887:3853:-3.589e+00 -MT 272 . A C, . base_quality;t_lod CONTQ=93.00;DP=7586 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:3699,5,0:2.803e-04,2.694e-04:3704:base_quality;t_lod:28,8,0:322,318,0:60,60,0:8,0:0|1:251_G_T:251:0.010,0.00,1.350e-03:1.517e-04,9.365e-04,0.999:-3.252e+00,-3.269e+00 ./.:3887,0,0:0.00,0.00:3887:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.589e+00,-3.589e+00 +MT 272 . A C, . base_quality;t_lod CONTQ=93.00;DP=7586 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:3699,5,0:2.803e-04,2.694e-04:3704:base_quality;t_lod:28,8,0:322,318,0:60,60,0:8,0:0|1:251_G_T:251:-3.252e+00,-3.269e+00 ./.:3887,0,0:0.00,0.00:3887:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.589e+00,-3.589e+00 MT 273 . C . . . GT:DP:MIN_DP:TLOD ./.:3620:3620:-3.557e+00 ./.:3887:3853:-3.589e+00 MT 274 . A . . . GT:DP:MIN_DP:TLOD ./.:3589:3589:-3.492e+00 ./.:3802:3802:-3.330e+00 MT 275 . G . . . GT:DP:MIN_DP:TLOD ./.:3538:3538:-3.526e+00 ./.:3746:3714:-3.567e+00 -MT 276 . A C, . base_quality;t_lod CONTQ=93.00;DP=7357 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3505,25,0:3.105e-04,2.815e-04:3530:base_quality;t_lod:28,7,0:319,348,0:60,60,0:27,0:0.010,0.010,7.082e-03:3.999e-03,2.415e-04,0.996:-3.208e+00,-3.249e+00 ./.:3746,0,0:0.00,0.00:3746:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.567e+00,-3.567e+00 +MT 276 . A C, . base_quality;t_lod CONTQ=93.00;DP=7357 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3505,25,0:3.105e-04,2.815e-04:3530:base_quality;t_lod:28,7,0:319,348,0:60,60,0:27,0:-3.208e+00,-3.249e+00 ./.:3746,0,0:0.00,0.00:3746:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.567e+00,-3.567e+00 MT 277 . C . . . GT:DP:MIN_DP:TLOD ./.:3463:3411:-3.528e+00 ./.:3746:3714:-3.567e+00 -MT 278 . A C, . base_quality;t_lod CONTQ=93.00;DP=7200 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3463,0,0:0.00,0.00:3463:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.528e+00,-3.528e+00 ././.:3647,10,0:2.735e-04,2.701e-04:3657:base_quality;t_lod:29,4,0:317,377,0:60,60,0:13,0:0.010,0.010,2.734e-03:0.026,9.815e-05,0.974:-3.262e+00,-3.267e+00 +MT 278 . A C, . base_quality;t_lod CONTQ=93.00;DP=7200 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3463,0,0:0.00,0.00:3463:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.528e+00,-3.528e+00 ././.:3647,10,0:2.735e-04,2.701e-04:3657:base_quality;t_lod:29,4,0:317,377,0:60,60,0:13,0:-3.262e+00,-3.267e+00 MT 279 . T . . . GT:DP:MIN_DP:TLOD ./.:3463:3411:-3.528e+00 ./.:3654:3654:-3.452e+00 MT 280 . C . . . GT:DP:MIN_DP:TLOD ./.:3416:3416:-3.256e+00 ./.:3612:3589:-3.564e+00 MT 281 . A . . . GT:DP:MIN_DP:TLOD ./.:3396:3396:-3.534e+00 ./.:3612:3589:-3.564e+00 @@ -385,44 +381,44 @@ MT 286 . A . . . GT:DP:MIN_DP:TLOD ./.:3252:3152:-3.497e+00 ./.:3544:3 MT 287 . A . . . GT:DP:MIN_DP:TLOD ./.:3252:3152:-3.497e+00 ./.:3513:3513:-3.540e+00 MT 288 . A . . END=290 GT:DP:MIN_DP:TLOD ./.:3252:3152:-3.497e+00 ./.:3465:3427:-3.500e+00 MT 291 . A . . . GT:DP:MIN_DP:TLOD ./.:3252:3152:-3.497e+00 ./.:3376:3376:-3.512e+00 -MT 292 . T A, . base_quality;t_lod CONTQ=93.00;DP=6987 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3245,7,0:3.055e-04,3.028e-04:3252:base_quality;t_lod:28,12,0:318,269,0:60,60,0:7,0:0.010,0.010,2.153e-03:0.622,2.623e-05,0.378:-3.214e+00,-3.218e+00 ././.:3368,14,0:2.978e-04,2.924e-04:3382:base_quality;t_lod:28,2,0:315,383,0:60,60,0:7,0:0.010,0.010,4.140e-03:1.000,3.750e-11,6.311e-07:-3.225e+00,-3.233e+00 -MT 293 . T A, . base_quality;t_lod CONTQ=93.00;DP=6678 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3257,8,0:3.061e-04,3.026e-04:3265:base_quality;t_lod:28,12,0:317,394,0:60,60,0:13,0:0.010,0.010,2.450e-03:0.915,5.722e-06,0.085:-3.213e+00,-3.218e+00 ./.:3268,0,0:0.00,0.00:3268:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.347e+00,-3.347e+00 +MT 292 . T A, . base_quality;t_lod CONTQ=93.00;DP=6987 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3245,7,0:3.055e-04,3.028e-04:3252:base_quality;t_lod:28,12,0:318,269,0:60,60,0:7,0:-3.214e+00,-3.218e+00 ././.:3368,14,0:2.978e-04,2.924e-04:3382:base_quality;t_lod:28,2,0:315,383,0:60,60,0:7,0:-3.225e+00,-3.233e+00 +MT 293 . T A, . base_quality;t_lod CONTQ=93.00;DP=6678 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3257,8,0:3.061e-04,3.026e-04:3265:base_quality;t_lod:28,12,0:317,394,0:60,60,0:13,0:-3.213e+00,-3.218e+00 ./.:3268,0,0:0.00,0.00:3268:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.347e+00,-3.347e+00 MT 294 . T . . . GT:DP:MIN_DP:TLOD ./.:3056:3056:-3.475e+00 ./.:3268:3252:-3.347e+00 -MT 295 . C A, . base_quality;t_lod CONTQ=93.00;DP=6725 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3311,6,0:3.026e-04,2.990e-04:3317:base_quality;t_lod:28,11,0:317,319,0:60,60,0:10,0:0.00,0.010,1.809e-03:0.958,2.393e-06,0.042:-3.218e+00,-3.223e+00 ./.:3326,0,0:0.00,0.00:3326:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.502e+00,-3.502e+00 -MT 296 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=6899 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3264,3,0,0:3.032e-04,3.020e-04,3.020e-04:3267:base_quality;t_lod:28,2,0,0:317,539,0,0:60,60,0,0:7,0,0:0.00,0.010,9.183e-04:0.086,5.219e-05,0.914:-3.217e+00,-3.219e+00,-3.219e+00 ././.:3346,0,4,0:2.936e-04,2.952e-04,2.936e-04:3350:base_quality;t_lod:28,0,12,0:315,0,293,0:60,0,60,0:0,26,0:0.010,0.010,1.194e-03:5.702e-03,9.588e-05,0.994:-3.231e+00,-3.229e+00,-3.231e+00 -MT 297 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=6642 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:3177,46,2,0:4.144e-04,3.032e-04,3.029e-04:3225:base_quality;t_lod:27,7,12,0:317,341,285,0:60,60,60,0:10,46,0:0.010,0.010,0.014:9.976e-04,1.344e-03,0.998:-2.914e+00,-3.041e+00,-3.042e+00 ./.:3264,0,0,0:0.00,0.00,0.00:3264:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.819e+00,-2.819e+00,-2.819e+00 +MT 295 . C A, . base_quality;t_lod CONTQ=93.00;DP=6725 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3311,6,0:3.026e-04,2.990e-04:3317:base_quality;t_lod:28,11,0:317,319,0:60,60,0:10,0:-3.218e+00,-3.223e+00 ./.:3326,0,0:0.00,0.00:3326:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.502e+00,-3.502e+00 +MT 296 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=6899 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3264,3,0,0:3.032e-04,3.020e-04,3.020e-04:3267:base_quality;t_lod:28,2,0,0:317,539,0,0:60,60,0,0:7,0,0:-3.217e+00,-3.219e+00,-3.219e+00 ././.:3346,0,4,0:2.936e-04,2.952e-04,2.936e-04:3350:base_quality;t_lod:28,0,12,0:315,0,293,0:60,0,60,0:0,26,0:-3.231e+00,-3.229e+00,-3.231e+00 +MT 297 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=6642 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:3177,46,2,0:4.144e-04,3.032e-04,3.029e-04:3225:base_quality;t_lod:27,7,12,0:317,341,285,0:60,60,60,0:10,46,0:-2.914e+00,-3.041e+00,-3.042e+00 ./.:3264,0,0,0:0.00,0.00,0.00:3264:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.819e+00,-2.819e+00,-2.819e+00 MT 298 . C . . . GT:DP:MIN_DP:TLOD ./.:3131:3131:-3.489e+00 ./.:3259:3259:-3.511e+00 -MT 299 . C CA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=6513 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3095,0,0:3.130e-04,3.130e-04:3095:base_quality;contamination;mapping_quality;t_lod:27,0,0:317,0,0:60,0,0:0,0:0.00,0.00,0.00:4.265e-04,5.766e-05,1.000:-3.204e+00,-3.204e+00 ./.:3236,0,0:0.00,0.00:3236:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.495e+00,-3.495e+00 +MT 299 . C CA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=6513 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3095,0,0:3.130e-04,3.130e-04:3095:base_quality;contamination;mapping_quality;t_lod:27,0,0:317,0,0:60,0,0:0,0:-3.204e+00,-3.204e+00 ./.:3236,0,0:0.00,0.00:3236:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.495e+00,-3.495e+00 MT 300 . A . . . GT:DP:MIN_DP:TLOD ./.:3042:3042:-2.739e+00 ./.:3236:3164:-3.495e+00 -MT 301 . A AAC,AC,ACC,AACC, . base_quality;strand_artifact CONTQ=93.00;DP=6470 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././././.:2505,44,360,24,0,0:2.340e-03,0.045,4.575e-04,3.158e-04,3.099e-04:2933:base_quality;strand_artifact:24,30,14,14,0,0:314,338,331,348,0,0:60,60,60,60,0,0:17,29,31,0,0:0.121,0.00,0.126:2.974e-15,1.000,4.672e-12:0.752,40.44,-2.652e+00,-2.802e+00,-2.810e+00 ./.:3236,0,0,0,0,0:0.00,0.00,0.00,0.00,0.00:3236:PASS:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.:.,.,.:.,.,.:-3.495e+00,-3.495e+00,-3.495e+00,-3.495e+00,-3.495e+00 -MT 302 . A AC,C,ACC,AAC,ACCC,AACC,ACCAC, . base_quality CONTQ=93.00;DP=6689 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././././././././.:67,1957,391,107,0,29,0,2,0:0.862,0.076,0.041,3.296e-04,6.224e-03,3.317e-04,3.454e-04,3.255e-04:2553:base_quality:12,15,29,15,0,28,0,31,0:328,315,331,303,0,304,0,292,0:60,60,60,60,0,60,0,60,0:38,30,30,0,13,0,7,0:0.970,0.374,0.967:0.00,1.00,0.00:3307.49,84.49,64.62,-2.580e+00,4.97,-2.577e+00,-2.561e+00,-2.585e+00 ./././.:2424,36,383,0,0,0,0,0,0:6.293e-03,0.055,3.086e-04,3.086e-04,3.086e-04,3.086e-04,3.086e-04,3.086e-04:2843:base_quality:16,26,5,0,0,0,0,0,0:316,329,312,0,0,0,0,0,0:60,60,60,0,0,0,0,0,0:12,29,0,0,0,0,0,0:0.141,0.020,0.136:2.788e-08,1.000,2.804e-05:5.66,41.20,-3.034e+00,-3.034e+00,-3.034e+00,-3.034e+00,-3.034e+00,-3.034e+00 -MT 303 . C CCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=6485 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3093,0,0:3.138e-04,3.138e-04:3093:base_quality;contamination;mapping_quality;t_lod:29,0,0:317,0,0:60,0,0:0,0:0.00,0.00,0.00:4.669e-04,5.703e-05,0.999:-3.202e+00,-3.202e+00 ./.:3165,0,0:0.00,0.00:3165:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.474e+00,-3.474e+00 -MT 304 . C A, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=6416 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3013,0,0:0.00,0.00:3013:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.481e+00,-3.481e+00 ././.:3276,13,0:3.253e-04,3.003e-04:3289:base_quality;strand_artifact;t_lod:28,14,0:315,311,0:60,60,0:5,0:0.00,0.010,3.953e-03:1.000,1.346e-14,2.523e-10:-3.188e+00,-3.222e+00 -MT 305 . C CA,CCA, . base_quality;contamination;t_lod CONTQ=1.00;DP=6419 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3013,0,0,0:0.00,0.00,0.00:3013:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.481e+00,-3.481e+00,-3.481e+00 ./././.:3202,1,0,0:3.018e-04,3.032e-04,3.011e-04:3203:base_quality;contamination;t_lod:28,2,0,0:315,390,0,0:60,60,0,0:8,0,0:0.00,0.00,0.00:4.871e-04,5.460e-05,0.999:-3.043e+00,-3.041e+00,-3.044e+00 -MT 306 . C A,CA, . base_quality;t_lod CONTQ=93.00;DP=6450 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3013,0,0,0:0.00,0.00,0.00:3013:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.481e+00,-3.481e+00,-3.481e+00 ./././.:3232,5,2,0:3.297e-04,3.014e-04,2.985e-04:3239:base_quality;t_lod:28,13,17,0:315,369,383,0:60,60,60,0:22,13,0:0.010,0.010,1.545e-03:1.341e-03,1.898e-04,0.998:-3.005e+00,-3.044e+00,-3.048e+00 +MT 301 . A AAC,AC,ACC,AACC, . base_quality;strand_artifact CONTQ=93.00;DP=6470 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././././.:2505,44,360,24,0,0:2.340e-03,0.045,4.575e-04,3.158e-04,3.099e-04:2933:base_quality;strand_artifact:24,30,14,14,0,0:314,338,331,348,0,0:60,60,60,60,0,0:17,29,31,0,0:0.752,40.44,-2.652e+00,-2.802e+00,-2.810e+00 ./.:3236,0,0,0,0,0:0.00,0.00,0.00,0.00,0.00:3236:PASS:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.:-3.495e+00,-3.495e+00,-3.495e+00,-3.495e+00,-3.495e+00 +MT 302 . A AC,C,ACC,AAC,ACCC,AACC,ACCAC, . base_quality CONTQ=93.00;DP=6689 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././././././././.:67,1957,391,107,0,29,0,2,0:0.862,0.076,0.041,3.296e-04,6.224e-03,3.317e-04,3.454e-04,3.255e-04:2553:base_quality:12,15,29,15,0,28,0,31,0:328,315,331,303,0,304,0,292,0:60,60,60,60,0,60,0,60,0:38,30,30,0,13,0,7,0:3307.49,84.49,64.62,-2.580e+00,4.97,-2.577e+00,-2.561e+00,-2.585e+00 ./././.:2424,36,383,0,0,0,0,0,0:6.293e-03,0.055,3.086e-04,3.086e-04,3.086e-04,3.086e-04,3.086e-04,3.086e-04:2843:base_quality:16,26,5,0,0,0,0,0,0:316,329,312,0,0,0,0,0,0:60,60,60,0,0,0,0,0,0:12,29,0,0,0,0,0,0:5.66,41.20,-3.034e+00,-3.034e+00,-3.034e+00,-3.034e+00,-3.034e+00,-3.034e+00 +MT 303 . C CCA, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=6485 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3093,0,0:3.138e-04,3.138e-04:3093:base_quality;contamination;mapping_quality;t_lod:29,0,0:317,0,0:60,0,0:0,0:-3.202e+00,-3.202e+00 ./.:3165,0,0:0.00,0.00:3165:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.474e+00,-3.474e+00 +MT 304 . C A, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=6416 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3013,0,0:0.00,0.00:3013:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.481e+00,-3.481e+00 ././.:3276,13,0:3.253e-04,3.003e-04:3289:base_quality;strand_artifact;t_lod:28,14,0:315,311,0:60,60,0:5,0:-3.188e+00,-3.222e+00 +MT 305 . C CA,CCA, . base_quality;contamination;t_lod CONTQ=1.00;DP=6419 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3013,0,0,0:0.00,0.00,0.00:3013:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.481e+00,-3.481e+00,-3.481e+00 ./././.:3202,1,0,0:3.018e-04,3.032e-04,3.011e-04:3203:base_quality;contamination;t_lod:28,2,0,0:315,390,0,0:60,60,0,0:8,0,0:-3.043e+00,-3.041e+00,-3.044e+00 +MT 306 . C A,CA, . base_quality;t_lod CONTQ=93.00;DP=6450 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3013,0,0,0:0.00,0.00,0.00:3013:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.481e+00,-3.481e+00,-3.481e+00 ./././.:3232,5,2,0:3.297e-04,3.014e-04,2.985e-04:3239:base_quality;t_lod:28,13,17,0:315,369,383,0:60,60,60,0:22,13,0:-3.005e+00,-3.044e+00,-3.048e+00 MT 307 . C . . END=308 GT:DP:MIN_DP:TLOD ./.:3013:2999:-3.481e+00 ./.:3123:3119:-3.489e+00 -MT 309 . C CA,CCA, . base_quality;mapping_quality;t_lod CONTQ=93.00;DP=6767 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:3018,0,19,0:3.102e-04,3.324e-04,3.105e-04:3037:base_quality;mapping_quality;t_lod:27,0,17,0:317,0,325,0:60,0,60,0:0,7,0:0.010,0.010,6.256e-03:0.375,1.030e-04,0.625:-3.031e+00,-3.003e+00,-3.031e+00 ././.:3121,12,0,0:3.181e-04,3.123e-04,3.123e-04:3133:t_lod:27,22,0,0:315,371,0,0:60,60,0,0:8,0,0:0.010,0.010,3.830e-03:0.153,1.132e-04,0.846:-3.197e+00,-3.205e+00,-3.205e+00 -MT 310 . T TC,C, . PASS CONTQ=93.00;DP=6713 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:1,2897,109,0:0.992,7.771e-03,3.102e-04:3007:5,25,23,0:310,317,318,0:60,60,60,0:31,3,0:0.990,0.990,1.000:0.022,0.035,0.943:7391.53,5.52,-3.031e+00 ./././.:78,2810,12,0:0.986,3.243e-04,3.071e-04:2900:6,25,13,0:355,319,371,0:60,60,60,0:35,7,0:0.970,0.707,0.973:0.00,1.00,0.00:7224.99,-3.013e+00,-3.036e+00 +MT 309 . C CA,CCA, . base_quality;mapping_quality;t_lod CONTQ=93.00;DP=6767 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:3018,0,19,0:3.102e-04,3.324e-04,3.105e-04:3037:base_quality;mapping_quality;t_lod:27,0,17,0:317,0,325,0:60,0,60,0:0,7,0:-3.031e+00,-3.003e+00,-3.031e+00 ././.:3121,12,0,0:3.181e-04,3.123e-04,3.123e-04:3133:t_lod:27,22,0,0:315,371,0,0:60,60,0,0:8,0,0:-3.197e+00,-3.205e+00,-3.205e+00 +MT 310 . T TC,C, . PASS CONTQ=93.00;DP=6713 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:1,2897,109,0:0.992,7.771e-03,3.102e-04:3007:5,25,23,0:310,317,318,0:60,60,60,0:31,3,0:7391.53,5.52,-3.031e+00 ./././.:78,2810,12,0:0.986,3.243e-04,3.071e-04:2900:6,25,13,0:355,319,371,0:60,60,60,0:35,7,0:7224.99,-3.013e+00,-3.036e+00 MT 311 . C . . . GT:DP:MIN_DP:TLOD ./.:3059:2993:-3.494e+00 ./.:3109:3109:-3.506e+00 MT 312 . C . . END=315 GT:DP:MIN_DP:TLOD ./.:3059:2993:-3.494e+00 ./.:3139:3118:-3.457e+00 -MT 316 . G C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=6798 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:3292,30,0:1.783e-03,3.014e-04:3322:base_quality;strand_artifact;t_lod:28,4,0:316,326,0:60,60,0:3,0:0|1:316_G_C:316:0.00,0.010,9.031e-03:1.00,0.00,0.00:-1.276e-01,-3.220e+00 .|.|.:3249,74,0:0.011,2.980e-04:3323:strand_artifact:28,22,0:317,361,0:60,60,0:4,0:0|1:316_G_C:316:0.00,0.020,0.022:1.00,0.00,0.00:24.36,-3.225e+00 -MT 317 . CTT C, . base_quality;strand_artifact CONTQ=93.00;DP=6648 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:3123,0,0:0.00,0.00:3123:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.497e+00,-3.497e+00 .|.|.:3361,74,0:0.011,2.896e-04:3435:base_quality;strand_artifact:28,2,0:317,361,0:60,60,0:3,0:0|1:316_G_C:316:0.00,0.020,0.022:1.00,0.00,0.00:23.83,-3.237e+00 -MT 318 . T C,*, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=6867 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:3217,31,0,0:1.871e-03,3.055e-04,3.055e-04:3248:base_quality;strand_artifact;t_lod:29,2,0,0:317,311,0,0:60,60,0,0:1,0,0:0|1:316_G_C:316:0.00,0.010,9.544e-03:1.00,0.00,0.00:-4.737e-02,-3.214e+00,-3.214e+00 .|.|.:3361,0,0,0:2.896e-04,2.896e-04,2.896e-04:3435:base_quality;strand_artifact:28,0,0,0:317,0,0,0:60,0,0,0:0,0,0:0|1:316_G_C:316:0.00,0.020,0.022:1.00,0.00,0.00:-3.237e+00,-3.237e+00,-3.237e+00 -MT 319 . T *, . base_quality;strand_artifact DP=7678 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:4153,0,0:0.00,0.00:4153:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.555e+00,-3.555e+00 .|.|.:3361,0,0:2.896e-04,2.896e-04:3435:base_quality;strand_artifact:28,0,0:317,0,0:60,0,0:0,0:0|1:316_G_C:316:0.00,0.020,0.022:1.00,0.00,0.00:-3.237e+00,-3.237e+00 -MT 320 . CTGG C, . base_quality;strand_artifact CONTQ=93.00;DP=7759 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:4190,0,0:0.00,0.00:4190:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.394e+00,-3.394e+00 .|.|.:3490,69,0:9.096e-03,2.822e-04:3559:base_quality;strand_artifact:28,2,0:318,370,0:60,60,0:0,0:0|1:316_G_C:316:0.00,0.020,0.019:1.00,0.00,0.00:19.73,-3.248e+00 -MT 321 . T *, . base_quality;strand_artifact DP=7701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:4215,0,0:0.00,0.00:4215:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.587e+00,-3.587e+00 .|.|.:3490,0,0:2.822e-04,2.822e-04:3559:base_quality;strand_artifact:28,0,0:318,0,0:60,0,0:0,0:0|1:316_G_C:316:0.00,0.020,0.019:1.00,0.00,0.00:-3.248e+00,-3.248e+00 -MT 322 . G *, . base_quality;strand_artifact DP=7701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:4215,0,0:0.00,0.00:4215:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.587e+00,-3.587e+00 .|.|.:3490,0,0:2.822e-04,2.822e-04:3559:base_quality;strand_artifact:28,0,0:318,0,0:60,0,0:0,0:0|1:316_G_C:316:0.00,0.020,0.019:1.00,0.00,0.00:-3.248e+00,-3.248e+00 -MT 323 . G *, . base_quality;strand_artifact DP=7701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:4215,0,0:0.00,0.00:4215:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.587e+00,-3.587e+00 .|.|.:3490,0,0:2.822e-04,2.822e-04:3559:base_quality;strand_artifact:28,0,0:318,0,0:60,0,0:0,0:0|1:316_G_C:316:0.00,0.020,0.019:1.00,0.00,0.00:-3.248e+00,-3.248e+00 +MT 316 . G C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=6798 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:3292,30,0:1.783e-03,3.014e-04:3322:base_quality;strand_artifact;t_lod:28,4,0:316,326,0:60,60,0:3,0:0|1:316_G_C:316:-1.276e-01,-3.220e+00 .|.|.:3249,74,0:0.011,2.980e-04:3323:strand_artifact:28,22,0:317,361,0:60,60,0:4,0:0|1:316_G_C:316:24.36,-3.225e+00 +MT 317 . CTT C, . base_quality;strand_artifact CONTQ=93.00;DP=6648 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:3123,0,0:0.00,0.00:3123:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.497e+00,-3.497e+00 .|.|.:3361,74,0:0.011,2.896e-04:3435:base_quality;strand_artifact:28,2,0:317,361,0:60,60,0:3,0:0|1:316_G_C:316:23.83,-3.237e+00 +MT 318 . T C,*, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=6867 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:3217,31,0,0:1.871e-03,3.055e-04,3.055e-04:3248:base_quality;strand_artifact;t_lod:29,2,0,0:317,311,0,0:60,60,0,0:1,0,0:0|1:316_G_C:316:-4.737e-02,-3.214e+00,-3.214e+00 .|.|.:3361,0,0,0:2.896e-04,2.896e-04,2.896e-04:3435:base_quality;strand_artifact:28,0,0,0:317,0,0,0:60,0,0,0:0,0,0:0|1:316_G_C:316:-3.237e+00,-3.237e+00,-3.237e+00 +MT 319 . T *, . base_quality;strand_artifact DP=7678 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:4153,0,0:0.00,0.00:4153:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.555e+00,-3.555e+00 .|.|.:3361,0,0:2.896e-04,2.896e-04:3435:base_quality;strand_artifact:28,0,0:317,0,0:60,0,0:0,0:0|1:316_G_C:316:-3.237e+00,-3.237e+00 +MT 320 . CTGG C, . base_quality;strand_artifact CONTQ=93.00;DP=7759 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:4190,0,0:0.00,0.00:4190:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.394e+00,-3.394e+00 .|.|.:3490,69,0:9.096e-03,2.822e-04:3559:base_quality;strand_artifact:28,2,0:318,370,0:60,60,0:0,0:0|1:316_G_C:316:19.73,-3.248e+00 +MT 321 . T *, . base_quality;strand_artifact DP=7701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:4215,0,0:0.00,0.00:4215:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.587e+00,-3.587e+00 .|.|.:3490,0,0:2.822e-04,2.822e-04:3559:base_quality;strand_artifact:28,0,0:318,0,0:60,0,0:0,0:0|1:316_G_C:316:-3.248e+00,-3.248e+00 +MT 322 . G *, . base_quality;strand_artifact DP=7701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:4215,0,0:0.00,0.00:4215:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.587e+00,-3.587e+00 .|.|.:3490,0,0:2.822e-04,2.822e-04:3559:base_quality;strand_artifact:28,0,0:318,0,0:60,0,0:0,0:0|1:316_G_C:316:-3.248e+00,-3.248e+00 +MT 323 . G *, . base_quality;strand_artifact DP=7701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:4215,0,0:0.00,0.00:4215:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.587e+00,-3.587e+00 .|.|.:3490,0,0:2.822e-04,2.822e-04:3559:base_quality;strand_artifact:28,0,0:318,0,0:60,0,0:0,0:0|1:316_G_C:316:-3.248e+00,-3.248e+00 MT 324 . C . . . GT:DP:MIN_DP:TLOD ./.:4307:4307:-3.458e+00 ./.:3343:3329:-3.463e+00 MT 325 . C . . . GT:DP:MIN_DP:TLOD ./.:4356:4356:-2.956e+00 ./.:3343:3329:-3.463e+00 -MT 326 . A C, . base_quality CONTQ=93.00;DP=7934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:4386,0,0:0.00,0.00:4386:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.613e+00,-3.613e+00 .|.|.:3415,63,0:9.006e-03,2.858e-04:3478:base_quality:29,2,0:317,362,0:60,60,0:-4,0:0|1:316_G_C:316:0.010,0.020,0.018:1.00,0.00,0.00:21.06,-3.243e+00 +MT 326 . A C, . base_quality CONTQ=93.00;DP=7934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:4386,0,0:0.00,0.00:4386:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.613e+00,-3.613e+00 .|.|.:3415,63,0:9.006e-03,2.858e-04:3478:base_quality:29,2,0:317,362,0:60,60,0:-4,0:0|1:316_G_C:316:21.06,-3.243e+00 MT 327 . C . . . GT:DP:MIN_DP:TLOD ./.:4386:4369:-3.613e+00 ./.:3397:3397:-3.534e+00 MT 328 . A . . . GT:DP:MIN_DP:TLOD ./.:4386:4369:-3.613e+00 ./.:3413:3413:-3.423e+00 MT 329 . G . . . GT:DP:MIN_DP:TLOD ./.:4382:4382:-2.985e+00 ./.:3519:3421:-3.548e+00 MT 330 . C . . END=331 GT:DP:MIN_DP:TLOD ./.:4480:4467:-3.611e+00 ./.:3519:3421:-3.548e+00 MT 332 . C . . END=333 GT:DP:MIN_DP:TLOD ./.:4514:4499:-3.458e+00 ./.:3519:3421:-3.548e+00 MT 334 . T . . END=335 GT:DP:MIN_DP:TLOD ./.:4552:4546:-3.578e+00 ./.:3519:3421:-3.548e+00 -MT 336 . A C, . base_quality;t_lod CONTQ=93.00;DP=8343 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4599,0,0:0.00,0.00:4599:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.475e+00,-3.475e+00 ././.:3610,13,0:4.089e-04,2.725e-04:3623:base_quality;t_lod:28,10,0:317,314,0:60,60,0:21,0:0.010,0.00,3.588e-03:2.015e-04,5.527e-03,0.994:-3.061e+00,-3.264e+00 +MT 336 . A C, . base_quality;t_lod CONTQ=93.00;DP=8343 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4599,0,0:0.00,0.00:4599:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.475e+00,-3.475e+00 ././.:3610,13,0:4.089e-04,2.725e-04:3623:base_quality;t_lod:28,10,0:317,314,0:60,60,0:21,0:-3.061e+00,-3.264e+00 MT 337 . A . . . GT:DP:MIN_DP:TLOD ./.:4599:4586:-3.475e+00 ./.:3618:3618:-3.335e+00 MT 338 . C . . . GT:DP:MIN_DP:TLOD ./.:4637:4637:-3.572e+00 ./.:3649:3649:-3.557e+00 MT 339 . A . . . GT:DP:MIN_DP:TLOD ./.:4645:4645:-3.448e+00 ./.:3653:3653:-3.341e+00 @@ -434,13 +430,13 @@ MT 347 . G . . END=348 GT:DP:MIN_DP:TLOD ./.:4942:4829:-3.650e+00 ./.: MT 349 . C . . END=351 GT:DP:MIN_DP:TLOD ./.:4942:4829:-3.650e+00 ./.:3989:3933:-3.597e+00 MT 352 . A . . . GT:DP:MIN_DP:TLOD ./.:4946:4946:-2.808e+00 ./.:3989:3933:-3.597e+00 MT 353 . C . . . GT:DP:MIN_DP:TLOD ./.:5039:5039:-3.682e+00 ./.:3989:3933:-3.597e+00 -MT 354 . C A, . base_quality;t_lod CONTQ=93.00;DP=9242 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5090,0,0:0.00,0.00:5090:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.461e+00,-3.461e+00 ././.:4048,3,0:2.449e-04,2.441e-04:4051:base_quality;t_lod:28,12,0:321,347,0:60,60,0:47,0:0.010,0.00,7.406e-04:1.323e-04,3.914e-04,0.999:-3.310e+00,-3.311e+00 -MT 355 . C A, . base_quality;t_lod CONTQ=93.00;DP=9265 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5090,0,0:0.00,0.00:5090:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.461e+00,-3.461e+00 ././.:4070,4,0:2.480e-04,2.428e-04:4074:base_quality;t_lod:28,13,0:322,304,0:60,60,0:25,0:0.010,0.00,9.818e-04:1.283e-04,6.354e-04,0.999:-3.305e+00,-3.314e+00 +MT 354 . C A, . base_quality;t_lod CONTQ=93.00;DP=9242 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5090,0,0:0.00,0.00:5090:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.461e+00,-3.461e+00 ././.:4048,3,0:2.449e-04,2.441e-04:4051:base_quality;t_lod:28,12,0:321,347,0:60,60,0:47,0:-3.310e+00,-3.311e+00 +MT 355 . C A, . base_quality;t_lod CONTQ=93.00;DP=9265 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5090,0,0:0.00,0.00:5090:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.461e+00,-3.461e+00 ././.:4070,4,0:2.480e-04,2.428e-04:4074:base_quality;t_lod:28,13,0:322,304,0:60,60,0:25,0:-3.305e+00,-3.314e+00 MT 356 . C . . . GT:DP:MIN_DP:TLOD ./.:5090:5076:-3.461e+00 ./.:4119:4109:-3.614e+00 MT 357 . A . . . GT:DP:MIN_DP:TLOD ./.:5127:5127:-2.939e+00 ./.:4119:4109:-3.614e+00 -MT 358 . A C, . base_quality;t_lod CONTQ=93.00;DP=9410 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5155,0,0:0.00,0.00:5155:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.505e+00,-3.505e+00 ././.:4138,10,0:2.684e-04,2.392e-04:4148:base_quality;t_lod:28,8,0:322,301,0:60,60,0:30,0:0.010,0.010,2.411e-03:2.242e-04,5.955e-04,0.999:-3.270e+00,-3.320e+00 +MT 358 . A C, . base_quality;t_lod CONTQ=93.00;DP=9410 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5155,0,0:0.00,0.00:5155:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.505e+00,-3.505e+00 ././.:4138,10,0:2.684e-04,2.392e-04:4148:base_quality;t_lod:28,8,0:322,301,0:60,60,0:30,0:-3.270e+00,-3.320e+00 MT 359 . A . . . GT:DP:MIN_DP:TLOD ./.:5182:5182:-2.936e+00 ./.:4178:4178:-3.608e+00 -MT 360 . A C, . base_quality;t_lod CONTQ=93.00;DP=9519 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5228,0,0:0.00,0.00:5228:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.300e+00,-3.300e+00 ././.:4174,15,0:2.413e-04,2.370e-04:4189:base_quality;t_lod:28,8,0:321,355,0:60,60,0:26,0:0.010,0.010,3.581e-03:1.710e-04,2.388e-03,0.997:-3.317e+00,-3.324e+00 +MT 360 . A C, . base_quality;t_lod CONTQ=93.00;DP=9519 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5228,0,0:0.00,0.00:5228:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.300e+00,-3.300e+00 ././.:4174,15,0:2.413e-04,2.370e-04:4189:base_quality;t_lod:28,8,0:321,355,0:60,60,0:26,0:-3.317e+00,-3.324e+00 MT 361 . A . . . GT:DP:MIN_DP:TLOD ./.:5228:5219:-3.300e+00 ./.:5199:5198:-3.641e+00 MT 362 . C . . . GT:DP:MIN_DP:TLOD ./.:5259:5259:-3.642e+00 ./.:5199:5198:-3.641e+00 MT 363 . A . . END=364 GT:DP:MIN_DP:TLOD ./.:5308:5302:-3.474e+00 ./.:5251:5243:-3.476e+00 @@ -510,46 +506,46 @@ MT 450 . T . . . GT:DP:MIN_DP:TLOD ./.:6480:6471:-3.362e+00 ./.:6430:6 MT 451 . A . . . GT:DP:MIN_DP:TLOD ./.:6480:6471:-3.362e+00 ./.:6404:6404:-3.112e+00 MT 452 . T . . END=454 GT:DP:MIN_DP:TLOD ./.:6442:6431:-3.672e+00 ./.:6397:6366:-3.741e+00 MT 455 . T . . . GT:DP:MIN_DP:TLOD ./.:6384:6384:-2.118e+00 ./.:6397:6366:-3.741e+00 -MT 456 . C T, . base_quality;t_lod CONTQ=93.00;DP=10221 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6563,0,0:0.00,0.00:6563:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.475e+00,-3.475e+00 ././.:3553,1,0:2.787e-04,2.783e-04:3554:base_quality;t_lod:28,14,0:322,524,0:60,60,0:8,0:0.00,0.010,2.814e-04:9.050e-04,5.871e-05,0.999:-3.254e+00,-3.254e+00 -MT 457 . C A, . t_lod CONTQ=93.00;DP=10250 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6576,0,0:0.00,0.00:6576:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.671e+00,-2.671e+00 ././.:3558,3,0:3.239e-04,2.776e-04:3561:t_lod:28,20,0:323,315,0:60,60,0:26,0:0.010,0.010,8.425e-04:4.044e-04,1.454e-04,0.999:-3.189e+00,-3.256e+00 +MT 456 . C T, . base_quality;t_lod CONTQ=93.00;DP=10221 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6563,0,0:0.00,0.00:6563:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.475e+00,-3.475e+00 ././.:3553,1,0:2.787e-04,2.783e-04:3554:base_quality;t_lod:28,14,0:322,524,0:60,60,0:8,0:-3.254e+00,-3.254e+00 +MT 457 . C A, . t_lod CONTQ=93.00;DP=10250 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6576,0,0:0.00,0.00:6576:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.671e+00,-2.671e+00 ././.:3558,3,0:3.239e-04,2.776e-04:3561:t_lod:28,20,0:323,315,0:60,60,0:26,0:-3.189e+00,-3.256e+00 MT 458 . C . . . GT:DP:MIN_DP:TLOD ./.:6581:6581:-3.490e+00 ./.:3629:3629:-3.552e+00 MT 459 . C . . . GT:DP:MIN_DP:TLOD ./.:6660:6660:-3.676e+00 ./.:3669:3669:-3.354e+00 MT 460 . T . . . GT:DP:MIN_DP:TLOD ./.:6449:6449:-2.015e+00 ./.:3640:3625:-3.559e+00 MT 461 . C . . END=462 GT:DP:MIN_DP:TLOD ./.:6535:6458:-3.810e+00 ./.:3640:3625:-3.559e+00 MT 463 . C . . . GT:DP:MIN_DP:TLOD ./.:6535:6458:-3.810e+00 ./.:3680:3680:-3.469e+00 -MT 464 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7542 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3497,121,0,0:1.510e-03,2.792e-04,2.792e-04:3618:base_quality;t_lod:26,5,0,0:318,329,0,0:60,60,0,0:35,0,0:0.030,0.020,0.033:4.242e-04,0.028,0.972:-2.148e+00,-3.254e+00,-3.254e+00 ./././.:3448,119,4,0:9.508e-04,2.821e-04,2.809e-04:3571:base_quality;t_lod:26,5,13,0:324,342,269,0:60,60,60,0:33,62,0:0.030,0.030,0.033:1.055e-03,1.711e-03,0.997:-2.523e+00,-3.073e+00,-3.075e+00 +MT 464 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7542 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3497,121,0,0:1.510e-03,2.792e-04,2.792e-04:3618:base_quality;t_lod:26,5,0,0:318,329,0,0:60,60,0,0:35,0,0:-2.148e+00,-3.254e+00,-3.254e+00 ./././.:3448,119,4,0:9.508e-04,2.821e-04,2.809e-04:3571:base_quality;t_lod:26,5,13,0:324,342,269,0:60,60,60,0:33,62,0:-2.523e+00,-3.073e+00,-3.075e+00 MT 465 . C . . . GT:DP:MIN_DP:TLOD ./.:3682:3682:-3.568e+00 ./.:3669:3669:-3.558e+00 MT 466 . T . . . GT:DP:MIN_DP:TLOD ./.:3661:3661:-3.485e+00 ./.:3628:3628:-3.401e+00 MT 467 . C . . END=469 GT:DP:MIN_DP:TLOD ./.:3714:3705:-3.571e+00 ./.:3700:3682:-3.571e+00 -MT 470 . A C, . base_quality;t_lod CONTQ=93.00;DP=7613 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3631,52,0:3.160e-04,2.702e-04:3683:base_quality;t_lod:28,7,0:319,306,0:60,60,0:38,0:0.010,0.010,0.014:0.926,1.070e-05,0.074:-3.202e+00,-3.267e+00 ././.:3608,49,0:4.115e-04,2.723e-04:3657:base_quality;t_lod:28,5,0:325,320,0:60,60,0:26,0:0.010,0.010,0.013:1.000,4.858e-10,4.865e-06:-3.088e+00,-3.264e+00 -MT 471 . T C, . base_quality;t_lod CONTQ=93.00;DP=7470 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:3683,0,0:0.00,0.00:3683:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.570e+00,-3.570e+00 .|.|.:3719,7,0:2.716e-04,2.669e-04:3726:base_quality;t_lod:28,6,0:324,464,0:60,60,0:10,0:0|1:471_T_C:471:0.010,0.010,1.879e-03:0.051,6.894e-05,0.949:-3.265e+00,-3.273e+00 -MT 472 . A C, . base_quality;t_lod CONTQ=93.00;DP=7486 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3683,0,0:0.00,0.00:3683:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.570e+00,-3.570e+00 ././.:3650,18,0:3.058e-04,2.702e-04:3668:base_quality;t_lod:28,8,0:324,297,0:60,60,0:21,0:0.010,0.010,4.907e-03:0.013,1.418e-04,0.986:-3.215e+00,-3.267e+00 +MT 470 . A C, . base_quality;t_lod CONTQ=93.00;DP=7613 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3631,52,0:3.160e-04,2.702e-04:3683:base_quality;t_lod:28,7,0:319,306,0:60,60,0:38,0:-3.202e+00,-3.267e+00 ././.:3608,49,0:4.115e-04,2.723e-04:3657:base_quality;t_lod:28,5,0:325,320,0:60,60,0:26,0:-3.088e+00,-3.264e+00 +MT 471 . T C, . base_quality;t_lod CONTQ=93.00;DP=7470 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:3683,0,0:0.00,0.00:3683:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.570e+00,-3.570e+00 .|.|.:3719,7,0:2.716e-04,2.669e-04:3726:base_quality;t_lod:28,6,0:324,464,0:60,60,0:10,0:0|1:471_T_C:471:-3.265e+00,-3.273e+00 +MT 472 . A C, . base_quality;t_lod CONTQ=93.00;DP=7486 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3683,0,0:0.00,0.00:3683:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.570e+00,-3.570e+00 ././.:3650,18,0:3.058e-04,2.702e-04:3668:base_quality;t_lod:28,8,0:324,297,0:60,60,0:21,0:-3.215e+00,-3.267e+00 MT 473 . C . . . GT:DP:MIN_DP:TLOD ./.:3683:3683:-3.570e+00 ./.:3628:3625:-3.428e+00 -MT 474 . T G, . base_quality;t_lod CONTQ=93.00;DP=7462 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3712,6,0:2.885e-04,2.663e-04:3718:base_quality;t_lod:29,7,0:320,283,0:60,60,0:39,0:0.010,0.010,1.614e-03:2.111e-04,4.600e-04,0.999:-3.239e+00,-3.274e+00 ./.:3628,0,0:0.00,0.00:3628:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.428e+00,-3.428e+00 -MT 475 . A C, . base_quality;t_lod CONTQ=93.00;DP=7546 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3722,0,0:0.00,0.00:3722:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.430e+00,-3.430e+00 ././.:3674,27,0:4.781e-04,2.687e-04:3701:base_quality;t_lod:28,6,0:326,327,0:60,60,0:13,0:0.010,0.010,7.295e-03:2.036e-03,2.809e-04,0.998:-2.985e+00,-3.270e+00 +MT 474 . T G, . base_quality;t_lod CONTQ=93.00;DP=7462 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3712,6,0:2.885e-04,2.663e-04:3718:base_quality;t_lod:29,7,0:320,283,0:60,60,0:39,0:-3.239e+00,-3.274e+00 ./.:3628,0,0:0.00,0.00:3628:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.428e+00,-3.428e+00 +MT 475 . A C, . base_quality;t_lod CONTQ=93.00;DP=7546 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3722,0,0:0.00,0.00:3722:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.430e+00,-3.430e+00 ././.:3674,27,0:4.781e-04,2.687e-04:3701:base_quality;t_lod:28,6,0:326,327,0:60,60,0:13,0:-2.985e+00,-3.270e+00 MT 476 . C . . . GT:DP:MIN_DP:TLOD ./.:3753:3752:-3.578e+00 ./.:3633:3633:-3.400e+00 MT 477 . T . . . GT:DP:MIN_DP:TLOD ./.:3753:3752:-3.578e+00 ./.:3631:3631:-3.522e+00 -MT 478 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7620 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3753,0,0,0:0.00,0.00,0.00:3753:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.578e+00,-3.578e+00,-3.578e+00 ./././.:3707,23,1,0:2.750e-04,2.654e-04,2.651e-04:3731:base_quality;t_lod:28,8,12,0:326,339,232,0:60,60,60,0:16,21,0:0.010,0.010,6.166e-03:2.193e-03,2.427e-04,0.998:-3.084e+00,-3.099e+00,-3.099e+00 -MT 479 . A C, . base_quality;t_lod CONTQ=93.00;DP=7535 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:3836,15,0:3.341e-04,2.588e-04:3851:base_quality;t_lod:28,6,0:322,413,0:60,60,0:21,0:0|1:479_A_C:479:0.010,0.010,3.895e-03:0.109,8.540e-05,0.891:-3.168e+00,-3.286e+00 ./.:3617,0,0:0.00,0.00:3617:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.477e+00,-3.477e+00 -MT 480 . T C, . base_quality;t_lod CONTQ=93.00;DP=7625 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3768,0,0:0.00,0.00:3768:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.579e+00,-3.579e+00 ././.:3733,18,0:2.709e-04,2.649e-04:3751:base_quality;t_lod:27,4,0:326,328,0:60,60,0:13,0:0.010,0.010,4.799e-03:7.514e-03,1.513e-04,0.992:-3.266e+00,-3.276e+00 +MT 478 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7620 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3753,0,0,0:0.00,0.00,0.00:3753:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.578e+00,-3.578e+00,-3.578e+00 ./././.:3707,23,1,0:2.750e-04,2.654e-04,2.651e-04:3731:base_quality;t_lod:28,8,12,0:326,339,232,0:60,60,60,0:16,21,0:-3.084e+00,-3.099e+00,-3.099e+00 +MT 479 . A C, . base_quality;t_lod CONTQ=93.00;DP=7535 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:3836,15,0:3.341e-04,2.588e-04:3851:base_quality;t_lod:28,6,0:322,413,0:60,60,0:21,0:0|1:479_A_C:479:-3.168e+00,-3.286e+00 ./.:3617,0,0:0.00,0.00:3617:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.477e+00,-3.477e+00 +MT 480 . T C, . base_quality;t_lod CONTQ=93.00;DP=7625 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3768,0,0:0.00,0.00:3768:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.579e+00,-3.579e+00 ././.:3733,18,0:2.709e-04,2.649e-04:3751:base_quality;t_lod:27,4,0:326,328,0:60,60,0:13,0:-3.266e+00,-3.276e+00 MT 481 . C . . . GT:DP:MIN_DP:TLOD ./.:3768:3748:-3.579e+00 ./.:3668:3668:-3.574e+00 MT 482 . T . . . GT:DP:MIN_DP:TLOD ./.:3793:3793:-3.312e+00 ./.:3680:3673:-3.409e+00 MT 483 . C . . . GT:DP:MIN_DP:TLOD ./.:3811:3811:-3.584e+00 ./.:3680:3673:-3.409e+00 -MT 484 . A C, . base_quality;t_lod CONTQ=93.00;DP=7656 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3813,33,0:5.731e-04,2.585e-04:3846:base_quality;t_lod:28,7,0:322,345,0:60,60,0:17,0:0.010,0.010,8.580e-03:9.660e-03,1.979e-04,0.990:-2.882e+00,-3.287e+00 ./.:3681,0,0:0.00,0.00:3681:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.543e+00,-3.543e+00 +MT 484 . A C, . base_quality;t_lod CONTQ=93.00;DP=7656 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3813,33,0:5.731e-04,2.585e-04:3846:base_quality;t_lod:28,7,0:322,345,0:60,60,0:17,0:-2.882e+00,-3.287e+00 ./.:3681,0,0:0.00,0.00:3681:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.543e+00,-3.543e+00 MT 485 . T . . . GT:DP:MIN_DP:TLOD ./.:3804:3804:-3.579e+00 ./.:3709:3666:-3.447e+00 MT 486 . C . . END=487 GT:DP:MIN_DP:TLOD ./.:3834:3830:-3.457e+00 ./.:3709:3666:-3.447e+00 -MT 488 . A C, . base_quality;t_lod CONTQ=93.00;DP=7745 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3834,0,0:0.00,0.00:3834:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.457e+00,-3.457e+00 ././.:3774,19,0:2.679e-04,2.617e-04:3793:base_quality;t_lod:28,7,0:327,325,0:60,60,0:18,0:0.010,0.010,5.009e-03:3.112e-04,8.840e-04,0.999:-3.271e+00,-3.281e+00 +MT 488 . A C, . base_quality;t_lod CONTQ=93.00;DP=7745 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3834,0,0:0.00,0.00:3834:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.457e+00,-3.457e+00 ././.:3774,19,0:2.679e-04,2.617e-04:3793:base_quality;t_lod:28,7,0:327,325,0:60,60,0:18,0:-3.271e+00,-3.281e+00 MT 489 . T . . . GT:DP:MIN_DP:TLOD ./.:3834:3830:-3.457e+00 ./.:3720:3718:-3.572e+00 MT 490 . A . . END=491 GT:DP:MIN_DP:TLOD ./.:3836:3835:-3.588e+00 ./.:3720:3718:-3.572e+00 -MT 492 . A C, . base_quality;t_lod CONTQ=93.00;DP=7764 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3857,0,0:0.00,0.00:3857:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.346e+00,-3.346e+00 ././.:3764,30,0:2.730e-04,2.629e-04:3794:base_quality;t_lod:28,2,0:327,289,0:60,60,0:8,0:0.010,0.010,7.907e-03:8.053e-05,0.424,0.576:-3.263e+00,-3.279e+00 -MT 493 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=7952 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3735,166,0:4.465e-03,2.620e-04:3901:base_quality;strand_artifact;t_lod:27,5,0:324,307,0:60,60,0:21,0:0.040,0.00,0.043:0.00,1.00,0.00:1.48,-3.281e+00 ././.:3614,147,0:5.693e-04,2.715e-04:3761:base_quality;t_lod:26,5,0:327,325,0:60,60,0:26,0:0.040,0.010,0.039:0.00,1.00,0.00:-2.993e+00,-3.266e+00 -MT 494 . C A, . base_quality;t_lod CONTQ=93.00;DP=7818 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:3922,0,0:0.00,0.00:3922:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.584e+00,-3.584e+00 .|.|.:3852,2,0:2.581e-04,2.575e-04:3854:base_quality;t_lod:28,0,0:327,615,0:60,60,0:0,0:0|1:471_T_C:471:0.00,0.010,5.189e-04:1.322e-03,6.360e-05,0.999:-3.287e+00,-3.288e+00 +MT 492 . A C, . base_quality;t_lod CONTQ=93.00;DP=7764 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3857,0,0:0.00,0.00:3857:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.346e+00,-3.346e+00 ././.:3764,30,0:2.730e-04,2.629e-04:3794:base_quality;t_lod:28,2,0:327,289,0:60,60,0:8,0:-3.263e+00,-3.279e+00 +MT 493 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=7952 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3735,166,0:4.465e-03,2.620e-04:3901:base_quality;strand_artifact;t_lod:27,5,0:324,307,0:60,60,0:21,0:1.48,-3.281e+00 ././.:3614,147,0:5.693e-04,2.715e-04:3761:base_quality;t_lod:26,5,0:327,325,0:60,60,0:26,0:-2.993e+00,-3.266e+00 +MT 494 . C A, . base_quality;t_lod CONTQ=93.00;DP=7818 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:3922,0,0:0.00,0.00:3922:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.584e+00,-3.584e+00 .|.|.:3852,2,0:2.581e-04,2.575e-04:3854:base_quality;t_lod:28,0,0:327,615,0:60,60,0:0,0:0|1:471_T_C:471:-3.287e+00,-3.288e+00 MT 495 . C . . . GT:DP:MIN_DP:TLOD ./.:3922:3896:-3.584e+00 ./.:3787:3787:-3.465e+00 MT 496 . C . . . GT:DP:MIN_DP:TLOD ./.:3922:3896:-3.584e+00 ./.:3803:3791:-3.583e+00 MT 497 . C . . END=498 GT:DP:MIN_DP:TLOD ./.:3930:3926:-3.187e+00 ./.:3803:3791:-3.583e+00 -MT 499 . G C, . base_quality;t_lod CONTQ=93.00;DP=7714 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3760,0,0:0.00,0.00:3760:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.340e+00,-2.340e+00 ././.:3709,85,0:4.323e-03,2.633e-04:3794:base_quality;t_lod:27,5,0:327,324,0:60,60,0:8,0:0.010,0.020,0.022:1.00,0.00,0.00:0.792,-3.279e+00 +MT 499 . G C, . base_quality;t_lod CONTQ=93.00;DP=7714 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3760,0,0:0.00,0.00:3760:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.340e+00,-2.340e+00 ././.:3709,85,0:4.323e-03,2.633e-04:3794:base_quality;t_lod:27,5,0:327,324,0:60,60,0:8,0:0.792,-3.279e+00 MT 500 . C . . END=502 GT:DP:MIN_DP:TLOD ./.:3983:3951:-3.600e+00 ./.:3846:3812:-3.583e+00 -MT 503 . A C, . base_quality;t_lod CONTQ=93.00;DP=7961 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3963,0,0:0.00,0.00:3963:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.681e+00,-2.681e+00 ././.:3790,61,0:4.001e-04,2.588e-04:3851:base_quality;t_lod:28,5,0:327,329,0:60,60,0:9,0:0.010,0.020,0.016:1.000,3.378e-12,3.576e-08:-3.096e+00,-3.286e+00 +MT 503 . A C, . base_quality;t_lod CONTQ=93.00;DP=7961 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3963,0,0:0.00,0.00:3963:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.681e+00,-2.681e+00 ././.:3790,61,0:4.001e-04,2.588e-04:3851:base_quality;t_lod:28,5,0:327,329,0:60,60,0:9,0:-3.096e+00,-3.286e+00 MT 504 . T . . . GT:DP:MIN_DP:TLOD ./.:3966:3966:-3.539e+00 ./.:3815:3815:-3.506e+00 MT 505 . C . . . GT:DP:MIN_DP:TLOD ./.:4019:4019:-3.456e+00 ./.:3862:3862:-3.466e+00 MT 506 . C . . . GT:DP:MIN_DP:TLOD ./.:4049:4043:-3.609e+00 ./.:3897:3897:-3.587e+00 @@ -557,16 +553,16 @@ MT 507 . T . . . GT:DP:MIN_DP:TLOD ./.:4049:4043:-3.609e+00 ./.:3878:3 MT 508 . A . . . GT:DP:MIN_DP:TLOD ./.:4019:4019:-3.337e+00 ./.:3878:3866:-3.497e+00 MT 509 . C . . END=510 GT:DP:MIN_DP:TLOD ./.:4099:4077:-3.614e+00 ./.:3962:3920:-3.602e+00 MT 511 . C . . . GT:DP:MIN_DP:TLOD ./.:4120:4100:-3.373e+00 ./.:3962:3920:-3.602e+00 -MT 512 . A C, . base_quality;t_lod CONTQ=93.00;DP=8211 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4120,0,0:0.00,0.00:4120:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.373e+00,-3.373e+00 ././.:3962,30,0:3.471e-04,2.489e-04:3992:base_quality;t_lod:28,5,0:327,320,0:60,60,0:10,0:0.010,0.010,7.515e-03:1.487e-03,2.855e-04,0.998:-3.163e+00,-3.303e+00 -MT 513 . G GCA, . t_lod CONTQ=93.00;DP=8204 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4150,0,0:0.00,0.00:4150:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.625e+00,-3.625e+00 ././.:3808,8,0:1.865e-03,2.534e-04:3816:t_lod:28,28,0:328,299,0:60,60,0:53,0:0.010,0.010,2.096e-03:1.713e-04,7.559e-04,0.999:1.92,-3.295e+00 +MT 512 . A C, . base_quality;t_lod CONTQ=93.00;DP=8211 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4120,0,0:0.00,0.00:4120:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.373e+00,-3.373e+00 ././.:3962,30,0:3.471e-04,2.489e-04:3992:base_quality;t_lod:28,5,0:327,320,0:60,60,0:10,0:-3.163e+00,-3.303e+00 +MT 513 . G GCA, . t_lod CONTQ=93.00;DP=8204 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4150,0,0:0.00,0.00:4150:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.625e+00,-3.625e+00 ././.:3808,8,0:1.865e-03,2.534e-04:3816:t_lod:28,28,0:328,299,0:60,60,0:53,0:1.92,-3.295e+00 MT 514 . C . . . GT:DP:MIN_DP:TLOD ./.:4150:4077:-3.625e+00 ./.:4001:4001:-3.480e+00 MT 515 . A . . END=516 GT:DP:MIN_DP:TLOD ./.:4150:4077:-3.625e+00 ./.:4111:4012:-3.629e+00 -MT 517 . A T, . base_quality;t_lod CONTQ=93.00;DP=8367 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4203,2,0:2.509e-04,2.350e-04:4205:base_quality;t_lod:28,19,0:328,380,0:60,60,0:32,0:0.00,0.010,4.756e-04:7.436e-04,6.634e-05,0.999:-3.300e+00,-3.328e+00 ./.:4111,0,0:0.00,0.00:4111:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.629e+00,-3.629e+00 +MT 517 . A T, . base_quality;t_lod CONTQ=93.00;DP=8367 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4203,2,0:2.509e-04,2.350e-04:4205:base_quality;t_lod:28,19,0:328,380,0:60,60,0:32,0:-3.300e+00,-3.328e+00 ./.:4111,0,0:0.00,0.00:4111:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.629e+00,-3.629e+00 MT 518 . C . . END=519 GT:DP:MIN_DP:TLOD ./.:4223:4220:-3.627e+00 ./.:4111:4012:-3.629e+00 MT 520 . C . . . GT:DP:MIN_DP:TLOD ./.:4257:4257:-3.354e+00 ./.:4111:4012:-3.629e+00 MT 521 . A . . END=524 GT:DP:MIN_DP:TLOD ./.:4298:4245:-3.642e+00 ./.:4111:4012:-3.629e+00 -MT 525 . C A, . base_quality;t_lod CONTQ=93.00;DP=8540 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:4442,3,0:2.266e-04,2.235e-04:4445:base_quality;t_lod:25,11,0:328,349,0:60,60,0:68,0:0|1:479_A_C:479:0.010,0.00,6.749e-04:7.964e-05,7.382e-04,0.999:-3.344e+00,-3.350e+00 ./.:4111,0,0:0.00,0.00:4111:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.629e+00,-3.629e+00 -MT 526 . G T, . base_quality;t_lod CONTQ=93.00;DP=8703 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4372,0,0:0.00,0.00:4372:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.645e+00,-3.645e+00 ././.:4256,5,0:2.742e-04,2.329e-04:4261:base_quality;t_lod:26,13,0:327,283,0:60,60,0:30,0:0.010,0.010,1.173e-03:4.399e-04,1.348e-04,0.999:-3.258e+00,-3.332e+00 +MT 525 . C A, . base_quality;t_lod CONTQ=93.00;DP=8540 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:4442,3,0:2.266e-04,2.235e-04:4445:base_quality;t_lod:25,11,0:328,349,0:60,60,0:68,0:0|1:479_A_C:479:-3.344e+00,-3.350e+00 ./.:4111,0,0:0.00,0.00:4111:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.629e+00,-3.629e+00 +MT 526 . G T, . base_quality;t_lod CONTQ=93.00;DP=8703 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4372,0,0:0.00,0.00:4372:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.645e+00,-3.645e+00 ././.:4256,5,0:2.742e-04,2.329e-04:4261:base_quality;t_lod:26,13,0:327,283,0:60,60,0:30,0:-3.258e+00,-3.332e+00 MT 527 . C . . . GT:DP:MIN_DP:TLOD ./.:4372:4325:-3.645e+00 ./.:4514:4286:-3.669e+00 MT 528 . T . . END=529 GT:DP:MIN_DP:TLOD ./.:4439:4429:-3.481e+00 ./.:4514:4286:-3.669e+00 MT 530 . C . . END=535 GT:DP:MIN_DP:TLOD ./.:4547:4467:-3.646e+00 ./.:4514:4286:-3.669e+00 @@ -574,17 +570,17 @@ MT 536 . C . . . GT:DP:MIN_DP:TLOD ./.:4656:4656:-3.487e+00 ./.:4514:4 MT 537 . C . . END=544 GT:DP:MIN_DP:TLOD ./.:4690:4651:-3.680e+00 ./.:4514:4286:-3.669e+00 MT 545 . G . . . GT:DP:MIN_DP:TLOD ./.:4473:4473:-3.204e+00 ./.:4514:4286:-3.669e+00 MT 546 . A . . END=549 GT:DP:MIN_DP:TLOD ./.:4843:4809:-3.687e+00 ./.:4514:4286:-3.669e+00 -MT 550 . A C, . base_quality;t_lod CONTQ=93.00;DP=9725 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4909,0,0:0.00,0.00:4909:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.456e+00,-3.456e+00 ././.:4665,37,0:3.510e-04,2.121e-04:4702:base_quality;t_lod:28,9,0:329,371,0:60,60,0:42,0:0.010,0.010,7.869e-03:6.062e-04,4.168e-04,0.999:-3.141e+00,-3.372e+00 -MT 551 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=9841 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4850,31,4,0:5.282e-04,2.534e-04,2.040e-04:4885:base_quality;t_lod:28,7,12,0:329,315,396,0:60,60,60,0:38,22,0:0.010,0.010,6.351e-03:8.424e-05,0.191,0.809:-2.763e+00,-3.112e+00,-3.213e+00 ././.:4710,26,0,0:3.518e-04,2.104e-04,2.104e-04:4736:base_quality;t_lod:28,8,0,0:329,306,0,0:60,60,0,0:37,0,0:0.010,0.010,5.490e-03:9.276e-05,0.104,0.896:-3.129e+00,-3.376e+00,-3.376e+00 +MT 550 . A C, . base_quality;t_lod CONTQ=93.00;DP=9725 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4909,0,0:0.00,0.00:4909:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.456e+00,-3.456e+00 ././.:4665,37,0:3.510e-04,2.121e-04:4702:base_quality;t_lod:28,9,0:329,371,0:60,60,0:42,0:-3.141e+00,-3.372e+00 +MT 551 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=9841 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4850,31,4,0:5.282e-04,2.534e-04,2.040e-04:4885:base_quality;t_lod:28,7,12,0:329,315,396,0:60,60,60,0:38,22,0:-2.763e+00,-3.112e+00,-3.213e+00 ././.:4710,26,0,0:3.518e-04,2.104e-04,2.104e-04:4736:base_quality;t_lod:28,8,0,0:329,306,0,0:60,60,0,0:37,0,0:-3.129e+00,-3.376e+00,-3.376e+00 MT 552 . C . . . GT:DP:MIN_DP:TLOD ./.:4929:4929:-3.680e+00 ./.:4855:4806:-3.683e+00 MT 553 . C . . . GT:DP:MIN_DP:TLOD ./.:4985:4985:-3.348e+00 ./.:4855:4806:-3.683e+00 MT 554 . A . . END=555 GT:DP:MIN_DP:TLOD ./.:5001:4995:-3.632e+00 ./.:4855:4806:-3.683e+00 -MT 556 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=10021 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4913,49,0,0:2.171e-04,2.015e-04,2.015e-04:4962:base_quality;t_lod:28,5,0,0:329,364,0,0:60,60,0,0:32,0,0:0.010,0.010,9.875e-03:6.985e-10,1.000,9.263e-06:-3.363e+00,-3.395e+00,-3.395e+00 ././.:4783,0,2,0:2.073e-04,2.077e-04,2.073e-04:4785:base_quality;t_lod:28,0,13,0:329,0,375,0:60,0,60,0:0,51,0:0.010,0.00,4.180e-04:6.425e-05,5.040e-04,0.999:-3.382e+00,-3.382e+00,-3.382e+00 +MT 556 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=10021 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4913,49,0,0:2.171e-04,2.015e-04,2.015e-04:4962:base_quality;t_lod:28,5,0,0:329,364,0,0:60,60,0,0:32,0,0:-3.363e+00,-3.395e+00,-3.395e+00 ././.:4783,0,2,0:2.073e-04,2.077e-04,2.073e-04:4785:base_quality;t_lod:28,0,13,0:329,0,375,0:60,0,60,0:0,51,0:-3.382e+00,-3.382e+00,-3.382e+00 MT 557 . C . . END=558 GT:DP:MIN_DP:TLOD ./.:5028:4987:-3.705e+00 ./.:4981:4872:-3.687e+00 -MT 559 . C A, . t_lod CONTQ=93.00;DP=10014 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5108,1,0:3.708e-04,1.951e-04:5109:t_lod:28,26,0:329,506,0:60,60,0:47,0:0.010,0.00,1.957e-04:5.636e-05,2.141e-04,1.000:-2.572e+00,-3.409e+00 ./.:4981,0,0:0.00,0.00:4981:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.687e+00,-3.687e+00 +MT 559 . C A, . t_lod CONTQ=93.00;DP=10014 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5108,1,0:3.708e-04,1.951e-04:5109:t_lod:28,26,0:329,506,0:60,60,0:47,0:-2.572e+00,-3.409e+00 ./.:4981,0,0:0.00,0.00:4981:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.687e+00,-3.687e+00 MT 560 . C . . END=561 GT:DP:MIN_DP:TLOD ./.:5104:5093:-3.687e+00 ./.:4981:4872:-3.687e+00 -MT 562 . A C, . base_quality;t_lod CONTQ=93.00;DP=10284 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5069,21,0:2.599e-04,1.955e-04:5090:base_quality;t_lod:28,5,0:330,279,0:60,60,0:28,0:0.010,0.010,4.126e-03:4.140e-04,3.372e-04,0.999:-3.284e+00,-3.408e+00 ././.:4949,15,0:2.524e-04,2.004e-04:4964:base_quality;t_lod:28,8,0:329,346,0:60,60,0:52,0:0.010,0.010,3.022e-03:1.303e-04,1.639e-03,0.998:-3.295e+00,-3.397e+00 -MT 563 . A C, . base_quality;t_lod CONTQ=93.00;DP=11621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6529,0,0:0.00,0.00:6529:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.673e+00,-3.673e+00 ././.:4964,16,0:2.082e-04,1.997e-04:4980:base_quality;t_lod:28,5,0:329,303,0:60,60,0:28,0:0.010,0.010,3.213e-03:1.003e-04,6.921e-03,0.993:-3.381e+00,-3.398e+00 +MT 562 . A C, . base_quality;t_lod CONTQ=93.00;DP=10284 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5069,21,0:2.599e-04,1.955e-04:5090:base_quality;t_lod:28,5,0:330,279,0:60,60,0:28,0:-3.284e+00,-3.408e+00 ././.:4949,15,0:2.524e-04,2.004e-04:4964:base_quality;t_lod:28,8,0:329,346,0:60,60,0:52,0:-3.295e+00,-3.397e+00 +MT 563 . A C, . base_quality;t_lod CONTQ=93.00;DP=11621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6529,0,0:0.00,0.00:6529:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.673e+00,-3.673e+00 ././.:4964,16,0:2.082e-04,1.997e-04:4980:base_quality;t_lod:28,5,0:329,303,0:60,60,0:28,0:-3.381e+00,-3.398e+00 MT 564 . G . . . GT:DP:MIN_DP:TLOD ./.:6410:6410:-5.716e-01 ./.:6392:6392:-7.878e-02 MT 565 . A . . END=566 GT:DP:MIN_DP:TLOD ./.:6475:6428:-3.687e+00 ./.:6460:6419:-3.742e+00 MT 567 . A . . . GT:DP:MIN_DP:TLOD ./.:6418:6418:3.75 ./.:6423:6423:8.94 @@ -689,43 +685,43 @@ MT 711 . T . . . GT:DP:MIN_DP:TLOD ./.:7103:7103:-3.415e+00 ./.:7073:7 MT 712 . C . . . GT:DP:MIN_DP:TLOD ./.:7109:7101:-3.782e+00 ./.:7074:7074:-3.348e+00 MT 713 . C . . END=714 GT:DP:MIN_DP:TLOD ./.:7109:7101:-3.782e+00 ./.:7063:7038:-3.774e+00 MT 715 . G . . . GT:DP:MIN_DP:TLOD ./.:7040:7040:-3.463e+00 ./.:7063:7038:-3.774e+00 -MT 716 . T G, . base_quality;t_lod CONTQ=93.00;DP=13643 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6419,13,0:1.623e-04,1.542e-04:6432:base_quality;t_lod:29,9,0:338,350,0:60,60,0:16,0:0.010,0.010,2.021e-03:3.864e-04,1.475e-04,0.999:-3.489e+00,-3.511e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.774e+00,-3.774e+00 +MT 716 . T G, . base_quality;t_lod CONTQ=93.00;DP=13643 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6419,13,0:1.623e-04,1.542e-04:6432:base_quality;t_lod:29,9,0:338,350,0:60,60,0:16,0:-3.489e+00,-3.511e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.774e+00,-3.774e+00 MT 717 . G . . END=718 GT:DP:MIN_DP:TLOD ./.:6496:6458:-3.807e+00 ./.:7063:7038:-3.774e+00 MT 719 . G . . . GT:DP:MIN_DP:TLOD ./.:6496:6458:-3.807e+00 ./.:6982:6982:-3.385e+00 MT 720 . T . . . GT:DP:MIN_DP:TLOD ./.:6496:6458:-3.807e+00 ./.:7066:7066:-3.780e+00 MT 721 . T . . . GT:DP:MIN_DP:TLOD ./.:6496:6458:-3.807e+00 ./.:7054:7054:-3.329e+00 -MT 722 . C A, . t_lod CONTQ=93.00;DP=13709 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6462,3,0:1.648e-04,1.533e-04:6465:t_lod:28,20,0:339,441,0:60,60,0:46,0:0.010,0.010,4.640e-04:7.433e-05,2.055e-04,1.000:-3.483e+00,-3.513e+00 ./.:7098,0,0:0.00,0.00:7098:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.720e+00,-3.720e+00 +MT 722 . C A, . t_lod CONTQ=93.00;DP=13709 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6462,3,0:1.648e-04,1.533e-04:6465:t_lod:28,20,0:339,441,0:60,60,0:46,0:-3.483e+00,-3.513e+00 ./.:7098,0,0:0.00,0.00:7098:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.720e+00,-3.720e+00 MT 723 . A . . END=725 GT:DP:MIN_DP:TLOD ./.:6535:6517:-3.801e+00 ./.:7098:7079:-3.720e+00 -MT 726 . C A, . base_quality;t_lod CONTQ=93.00;DP=13272 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6480,7,0:2.802e-04,1.527e-04:6487:base_quality;t_lod:29,14,0:339,290,0:60,60,0:36,0:0.010,0.010,1.079e-03:8.294e-05,6.565e-04,0.999:-3.224e+00,-3.515e+00 ././.:6432,5,0:1.762e-04,1.539e-04:6437:base_quality;t_lod:29,13,0:339,400,0:60,60,0:22,0:0.010,0.010,7.768e-04:1.704e-04,1.146e-04,1.000:-3.451e+00,-3.512e+00 +MT 726 . C A, . base_quality;t_lod CONTQ=93.00;DP=13272 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6480,7,0:2.802e-04,1.527e-04:6487:base_quality;t_lod:29,14,0:339,290,0:60,60,0:36,0:-3.224e+00,-3.515e+00 ././.:6432,5,0:1.762e-04,1.539e-04:6437:base_quality;t_lod:29,13,0:339,400,0:60,60,0:22,0:-3.451e+00,-3.512e+00 MT 727 . T . . END=735 GT:DP:MIN_DP:TLOD ./.:6565:6525:-3.791e+00 ./.:6659:6627:-3.813e+00 -MT 736 . C T, . t_lod CONTQ=93.00;DP=13354 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6558,2,0:1.844e-04,1.510e-04:6560:t_lod:28,21,0:340,248,0:60,60,0:38,0:0.00,0.010,3.049e-04:3.235e-04,5.091e-05,1.000:-3.427e+00,-3.520e+00 ./.:6659,0,0:0.00,0.00:6659:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.813e+00,-3.813e+00 -MT 737 . C A, . base_quality;t_lod CONTQ=93.00;DP=13420 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6554,10,0:1.520e-04,1.510e-04:6564:base_quality;t_lod:29,12,0:340,329,0:60,60,0:31,0:0.010,0.010,1.523e-03:1.489e-03,7.515e-05,0.998:-3.517e+00,-3.520e+00 ././.:6502,10,0:1.990e-04,1.522e-04:6512:base_quality;t_lod:29,12,0:338,336,0:60,60,0:34,0:0.010,0.010,1.536e-03:2.753e-04,1.370e-04,1.000:-3.395e+00,-3.516e+00 -MT 738 . A T, . base_quality;t_lod CONTQ=93.00;DP=13387 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6566,3,0:1.510e-04,1.507e-04:6569:base_quality;t_lod:29,12,0:339,429,0:60,60,0:44,0:0.010,0.010,4.567e-04:7.325e-05,2.040e-04,1.000:-3.520e+00,-3.521e+00 ./.:6671,0,0:0.00,0.00:6671:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 +MT 736 . C T, . t_lod CONTQ=93.00;DP=13354 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6558,2,0:1.844e-04,1.510e-04:6560:t_lod:28,21,0:340,248,0:60,60,0:38,0:-3.427e+00,-3.520e+00 ./.:6659,0,0:0.00,0.00:6659:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.813e+00,-3.813e+00 +MT 737 . C A, . base_quality;t_lod CONTQ=93.00;DP=13420 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6554,10,0:1.520e-04,1.510e-04:6564:base_quality;t_lod:29,12,0:340,329,0:60,60,0:31,0:-3.517e+00,-3.520e+00 ././.:6502,10,0:1.990e-04,1.522e-04:6512:base_quality;t_lod:29,12,0:338,336,0:60,60,0:34,0:-3.395e+00,-3.516e+00 +MT 738 . A T, . base_quality;t_lod CONTQ=93.00;DP=13387 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6566,3,0:1.510e-04,1.507e-04:6569:base_quality;t_lod:29,12,0:339,429,0:60,60,0:44,0:-3.520e+00,-3.521e+00 ./.:6671,0,0:0.00,0.00:6671:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 MT 739 . C . . END=741 GT:DP:MIN_DP:TLOD ./.:6602:6578:-3.816e+00 ./.:6671:6638:-3.819e+00 -MT 742 . T C, . base_quality;t_lod CONTQ=93.00;DP=13294 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6602,0,0:0.00,0.00:6602:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00 ././.:6491,32,0:2.099e-04,1.523e-04:6523:base_quality;t_lod:28,6,0:337,409,0:60,60,0:22,0:0.010,0.010,4.906e-03:3.364e-03,1.223e-04,0.997:-3.378e+00,-3.516e+00 -MT 743 . C A, . base_quality;t_lod CONTQ=93.00;DP=13495 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6613,5,0:1.503e-04,1.498e-04:6618:base_quality;t_lod:28,10,0:338,500,0:60,60,0:26,0:0.010,0.010,7.555e-04:1.624e-04,1.111e-04,1.000:-3.522e+00,-3.523e+00 ./.:6724,0,0:0.00,0.00:6724:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.828e+00,-3.828e+00 +MT 742 . T C, . base_quality;t_lod CONTQ=93.00;DP=13294 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6602,0,0:0.00,0.00:6602:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.816e+00,-3.816e+00 ././.:6491,32,0:2.099e-04,1.523e-04:6523:base_quality;t_lod:28,6,0:337,409,0:60,60,0:22,0:-3.378e+00,-3.516e+00 +MT 743 . C A, . base_quality;t_lod CONTQ=93.00;DP=13495 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6613,5,0:1.503e-04,1.498e-04:6618:base_quality;t_lod:28,10,0:338,500,0:60,60,0:26,0:-3.522e+00,-3.523e+00 ./.:6724,0,0:0.00,0.00:6724:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.828e+00,-3.828e+00 MT 744 . A . . . GT:DP:MIN_DP:TLOD ./.:6662:6662:-3.800e+00 ./.:6724:6711:-3.828e+00 -MT 745 . A C, . base_quality;t_lod CONTQ=93.00;DP=13520 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6605,15,0:1.593e-04,1.497e-04:6620:base_quality;t_lod:29,7,0:339,357,0:60,60,0:36,0:0.010,0.010,2.266e-03:2.537e-04,2.501e-04,0.999:-3.497e+00,-3.524e+00 ./.:6724,0,0:0.00,0.00:6724:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.828e+00,-3.828e+00 +MT 745 . A C, . base_quality;t_lod CONTQ=93.00;DP=13520 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6605,15,0:1.593e-04,1.497e-04:6620:base_quality;t_lod:29,7,0:339,357,0:60,60,0:36,0:-3.497e+00,-3.524e+00 ./.:6724,0,0:0.00,0.00:6724:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.828e+00,-3.828e+00 MT 746 . A . . END=747 GT:DP:MIN_DP:TLOD ./.:6653:6643:-3.818e+00 ./.:6724:6711:-3.828e+00 -MT 748 . G T, . base_quality;t_lod CONTQ=93.00;DP=13402 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6653,0,0:0.00,0.00:6653:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.818e+00,-3.818e+00 ././.:6565,6,0:1.724e-04,1.508e-04:6571:base_quality;t_lod:28,13,0:338,491,0:60,60,0:33,0:0.00,0.010,9.131e-04:4.212e-03,5.072e-05,0.996:-3.461e+00,-3.521e+00 -MT 749 . G T, . base_quality;t_lod CONTQ=93.00;DP=13522 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6624,8,0:1.505e-04,1.496e-04:6632:base_quality;t_lod:28,13,0:340,312,0:60,60,0:39,0:0.010,0.010,1.206e-03:6.842e-04,8.709e-05,0.999:-3.522e+00,-3.524e+00 ./.:6719,0,0:0.00,0.00:6719:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.646e+00,-3.646e+00 -MT 750 . A G, . PASS CONTQ=93.00;DP=13580 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ././.:8,6621,0:1.00,1.496e-04:6629:12,28,0:368,339,0:60,60,0:37,0:.:.:.:0.990,0.990,0.999:0.028,0.025,0.947:20901.35,-3.524e+00 .|.|.:9,6576,0:1.00,1.506e-04:6585:12,28,0:410,338,0:60,60,0:37,0:0|1:750_A_G:750:0.990,0.990,0.999:0.026,0.028,0.947:20681.99,-3.521e+00 +MT 748 . G T, . base_quality;t_lod CONTQ=93.00;DP=13402 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6653,0,0:0.00,0.00:6653:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.818e+00,-3.818e+00 ././.:6565,6,0:1.724e-04,1.508e-04:6571:base_quality;t_lod:28,13,0:338,491,0:60,60,0:33,0:-3.461e+00,-3.521e+00 +MT 749 . G T, . base_quality;t_lod CONTQ=93.00;DP=13522 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6624,8,0:1.505e-04,1.496e-04:6632:base_quality;t_lod:28,13,0:340,312,0:60,60,0:39,0:-3.522e+00,-3.524e+00 ./.:6719,0,0:0.00,0.00:6719:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.646e+00,-3.646e+00 +MT 750 . A G, . PASS CONTQ=93.00;DP=13580 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ././.:8,6621,0:1.00,1.496e-04:6629:12,28,0:368,339,0:60,60,0:37,0:.:.:.:20901.35,-3.524e+00 .|.|.:9,6576,0:1.00,1.506e-04:6585:12,28,0:410,338,0:60,60,0:37,0:0|1:750_A_G:750:20681.99,-3.521e+00 MT 751 . A . . END=759 GT:DP:MIN_DP:TLOD ./.:6678:6645:-3.822e+00 ./.:6758:6737:-3.829e+00 -MT 760 . A C, . base_quality;t_lod CONTQ=93.00;DP=13560 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6731,4,0:1.632e-04,1.476e-04:6735:base_quality;t_lod:29,15,0:339,383,0:60,60,0:7,0:0.010,0.010,5.939e-04:2.428e-04,7.289e-05,1.000:-3.486e+00,-3.530e+00 ./.:6758,0,0:0.00,0.00:6758:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.829e+00,-3.829e+00 -MT 761 . A C, . base_quality;t_lod CONTQ=93.00;DP=13385 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6652,0,0:0.00,0.00:6652:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00 ././.:6575,25,0:1.804e-04,1.503e-04:6600:base_quality;t_lod:29,5,0:338,348,0:60,60,0:35,0:0.010,0.010,3.788e-03:1.198e-04,2.186e-03,0.998:-3.444e+00,-3.522e+00 +MT 760 . A C, . base_quality;t_lod CONTQ=93.00;DP=13560 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6731,4,0:1.632e-04,1.476e-04:6735:base_quality;t_lod:29,15,0:339,383,0:60,60,0:7,0:-3.486e+00,-3.530e+00 ./.:6758,0,0:0.00,0.00:6758:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.829e+00,-3.829e+00 +MT 761 . A C, . base_quality;t_lod CONTQ=93.00;DP=13385 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6652,0,0:0.00,0.00:6652:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.816e+00,-3.816e+00 ././.:6575,25,0:1.804e-04,1.503e-04:6600:base_quality;t_lod:29,5,0:338,348,0:60,60,0:35,0:-3.444e+00,-3.522e+00 MT 762 . G . . END=767 GT:DP:MIN_DP:TLOD ./.:6652:6603:-3.816e+00 ./.:6725:6686:-3.826e+00 -MT 768 . A AGCAAT, . t_lod CONTQ=93.00;DP=13491 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6717,2,0:1.633e-04,1.480e-04:6719:t_lod:29,25,0:339,383,0:60,60,0:2,0:0.010,0.010,2.977e-04:9.315e-05,1.161e-04,1.000:-3.486e+00,-3.529e+00 ./.:6725,0,0:0.00,0.00:6725:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.826e+00,-3.826e+00 -MT 769 . G A, . t_lod CONTQ=93.00;DP=13411 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6646,0,0:0.00,0.00:6646:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.799e+00,-3.799e+00 ././.:6566,14,0:1.418e-03,1.504e-04:6580:t_lod:28,29,0:338,268,0:60,60,0:46,0:0.010,0.010,2.128e-03:9.919e-04,1.068e-04,0.999:0.262,-3.522e+00 -MT 770 . C A, . base_quality;t_lod CONTQ=93.00;DP=13404 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6646,0,0:0.00,0.00:6646:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.799e+00,-3.799e+00 ././.:6583,3,0:1.507e-04,1.503e-04:6586:base_quality;t_lod:28,11,0:338,281,0:60,60,0:60,0:0.010,0.00,4.555e-04:4.496e-05,9.366e-04,0.999:-3.521e+00,-3.522e+00 +MT 768 . A AGCAAT, . t_lod CONTQ=93.00;DP=13491 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6717,2,0:1.633e-04,1.480e-04:6719:t_lod:29,25,0:339,383,0:60,60,0:2,0:-3.486e+00,-3.529e+00 ./.:6725,0,0:0.00,0.00:6725:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.826e+00,-3.826e+00 +MT 769 . G A, . t_lod CONTQ=93.00;DP=13411 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6646,0,0:0.00,0.00:6646:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.799e+00,-3.799e+00 ././.:6566,14,0:1.418e-03,1.504e-04:6580:t_lod:28,29,0:338,268,0:60,60,0:46,0:0.262,-3.522e+00 +MT 770 . C A, . base_quality;t_lod CONTQ=93.00;DP=13404 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6646,0,0:0.00,0.00:6646:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.799e+00,-3.799e+00 ././.:6583,3,0:1.507e-04,1.503e-04:6586:base_quality;t_lod:28,11,0:338,281,0:60,60,0:60,0:-3.521e+00,-3.522e+00 MT 771 . A . . . GT:DP:MIN_DP:TLOD ./.:6646:6635:-3.799e+00 ./.:6730:6701:-3.765e+00 -MT 772 . A C, . base_quality;t_lod CONTQ=93.00;DP=13492 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6591,20,0:1.714e-04,1.500e-04:6611:base_quality;t_lod:29,7,0:339,419,0:60,60,0:39,0:0.010,0.010,3.025e-03:1.404e-03,1.110e-04,0.998:-3.467e+00,-3.523e+00 ./.:6730,0,0:0.00,0.00:6730:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.765e+00,-3.765e+00 +MT 772 . A C, . base_quality;t_lod CONTQ=93.00;DP=13492 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6591,20,0:1.714e-04,1.500e-04:6611:base_quality;t_lod:29,7,0:339,419,0:60,60,0:39,0:-3.467e+00,-3.523e+00 ./.:6730,0,0:0.00,0.00:6730:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.765e+00,-3.765e+00 MT 773 . T . . END=774 GT:DP:MIN_DP:TLOD ./.:6631:6584:-3.818e+00 ./.:6730:6701:-3.765e+00 -MT 775 . C G, . t_lod CONTQ=93.00;DP=13338 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:6631,0,0:0.00,0.00:6631:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.818e+00,-3.818e+00 .|.|.:6667,1,0:1.539e-04,1.491e-04:6668:t_lod:29,21,0:338,226,0:60,60,0:24,0:1|0:750_A_G:750:0.00,0.010,1.500e-04:1.207e-04,5.018e-05,1.000:-3.512e+00,-3.525e+00 +MT 775 . C G, . t_lod CONTQ=93.00;DP=13338 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:6631,0,0:0.00,0.00:6631:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.818e+00,-3.818e+00 .|.|.:6667,1,0:1.539e-04,1.491e-04:6668:t_lod:29,21,0:338,226,0:60,60,0:24,0:1|0:750_A_G:750:-3.512e+00,-3.525e+00 MT 776 . A . . END=778 GT:DP:MIN_DP:TLOD ./.:6631:6584:-3.818e+00 ./.:6695:6687:-3.809e+00 -MT 779 . T A, . base_quality;t_lod CONTQ=93.00;DP=13317 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6631,0,0:0.00,0.00:6631:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.818e+00,-3.818e+00 ././.:6493,5,0:1.591e-04,1.521e-04:6498:base_quality;t_lod:28,14,0:338,299,0:60,60,0:17,0:0.00,0.010,7.695e-04:2.136e-03,5.115e-05,0.998:-3.497e+00,-3.517e+00 +MT 779 . T A, . base_quality;t_lod CONTQ=93.00;DP=13317 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6631,0,0:0.00,0.00:6631:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.818e+00,-3.818e+00 ././.:6493,5,0:1.591e-04,1.521e-04:6498:base_quality;t_lod:28,14,0:338,299,0:60,60,0:17,0:-3.497e+00,-3.517e+00 MT 780 . C . . END=782 GT:DP:MIN_DP:TLOD ./.:6631:6584:-3.818e+00 ./.:6711:6697:-3.774e+00 -MT 783 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13478 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6553,0,5,0:1.509e-04,2.132e-04,1.509e-04:6558:base_quality;t_lod:29,0,15,0:339,0,499,0:60,0,60,0:0,50,0:0.010,0.010,7.624e-04:6.146e-05,6.440e-04,0.999:-3.520e+00,-3.364e+00,-3.520e+00 ././.:6526,21,0,0:1.724e-04,1.516e-04,1.516e-04:6547:base_quality;t_lod:28,9,0,0:337,342,0,0:60,60,0,0:29,0,0:0.010,0.010,3.208e-03:2.438e-04,2.707e-04,0.999:-3.464e+00,-3.518e+00,-3.518e+00 -MT 784 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13470 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6541,0,3,0:1.512e-04,1.724e-04,1.512e-04:6544:base_quality;t_lod:28,0,14,0:338,0,359,0:60,0,60,0:0,43,0:0.010,0.010,4.584e-04:7.199e-05,2.121e-04,1.000:-3.519e+00,-3.461e+00,-3.519e+00 ././.:6508,28,0,0:1.834e-04,1.519e-04,1.519e-04:6536:base_quality;t_lod:28,6,0,0:337,354,0,0:60,60,0,0:35,0,0:0.010,0.010,4.284e-03:1.042e-04,7.735e-03,0.992:-3.433e+00,-3.518e+00,-3.518e+00 +MT 783 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13478 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6553,0,5,0:1.509e-04,2.132e-04,1.509e-04:6558:base_quality;t_lod:29,0,15,0:339,0,499,0:60,0,60,0:0,50,0:-3.520e+00,-3.364e+00,-3.520e+00 ././.:6526,21,0,0:1.724e-04,1.516e-04,1.516e-04:6547:base_quality;t_lod:28,9,0,0:337,342,0,0:60,60,0,0:29,0,0:-3.464e+00,-3.518e+00,-3.518e+00 +MT 784 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13470 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6541,0,3,0:1.512e-04,1.724e-04,1.512e-04:6544:base_quality;t_lod:28,0,14,0:338,0,359,0:60,0,60,0:0,43,0:-3.519e+00,-3.461e+00,-3.519e+00 ././.:6508,28,0,0:1.834e-04,1.519e-04,1.519e-04:6536:base_quality;t_lod:28,6,0,0:337,354,0,0:60,60,0,0:35,0,0:-3.433e+00,-3.518e+00,-3.518e+00 MT 785 . C . . . GT:DP:MIN_DP:TLOD ./.:7183:7067:-3.844e+00 ./.:7139:7139:-3.622e+00 MT 786 . G . . . GT:DP:MIN_DP:TLOD ./.:7183:7067:-3.844e+00 ./.:7043:7043:-2.758e+00 MT 787 . C . . . GT:DP:MIN_DP:TLOD ./.:7183:7067:-3.844e+00 ./.:7167:7167:-3.812e+00 @@ -1046,52 +1042,52 @@ MT 1396 . C . . END=1397 GT:DP:MIN_DP:TLOD ./.:7187:7171:-3.404e+00 ./ MT 1398 . T . . . GT:DP:MIN_DP:TLOD ./.:7194:7185:-3.837e+00 ./.:7178:7152:-3.828e+00 MT 1399 . A . . END=1400 GT:DP:MIN_DP:TLOD ./.:7194:7185:-3.837e+00 ./.:7188:7183:-3.462e+00 MT 1401 . G . . END=1402 GT:DP:MIN_DP:TLOD ./.:7194:7185:-3.837e+00 ./.:7186:7178:-3.753e+00 -MT 1403 . A C, . base_quality;t_lod CONTQ=93.00;DP=13189 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6449,20,0:2.673e-04,1.536e-04:6469:base_quality;t_lod:29,7,0:348,437,0:60,60,0:33,0:0.010,0.010,3.092e-03:5.914e-04,1.481e-04,0.999:-3.271e+00,-3.513e+00 ././.:6401,22,0:1.606e-04,1.548e-04:6423:base_quality;t_lod:29,7,0:343,395,0:60,60,0:32,0:0.010,0.010,3.425e-03:1.193e-04,1.666e-03,0.998:-3.494e+00,-3.509e+00 +MT 1403 . A C, . base_quality;t_lod CONTQ=93.00;DP=13189 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6449,20,0:2.673e-04,1.536e-04:6469:base_quality;t_lod:29,7,0:348,437,0:60,60,0:33,0:-3.271e+00,-3.513e+00 ././.:6401,22,0:1.606e-04,1.548e-04:6423:base_quality;t_lod:29,7,0:343,395,0:60,60,0:32,0:-3.494e+00,-3.509e+00 MT 1404 . A . . END=1405 GT:DP:MIN_DP:TLOD ./.:6470:6451:-3.807e+00 ./.:6534:6501:-3.802e+00 -MT 1406 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=12995 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6470,0,0,0:0.00,0.00,0.00:6470:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00,-3.807e+00 ./././.:6324,1,34,0:1.563e-04,1.671e-04,1.561e-04:6359:base_quality;t_lod:29,13,5,0:343,429,381,0:60,60,60,0:27,27,0:0.010,0.010,5.348e-03:1.578e-04,1.534e-03,0.998:-3.329e+00,-3.301e+00,-3.329e+00 -MT 1407 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13145 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6394,4,0,0:1.684e-04,1.547e-04,1.547e-04:6398:base_quality;t_lod:29,11,0,0:348,387,0,0:60,60,0,0:42,0,0:0.00,0.010,6.252e-04:2.083e-03,4.521e-05,0.998:-3.473e+00,-3.510e+00,-3.510e+00 ./././.:6347,5,16,0:1.563e-04,2.098e-04,1.557e-04:6368:base_quality;t_lod:29,11,7,0:344,319,330,0:60,60,60,0:9,44,0:0.010,0.010,2.515e-03:1.911e-04,4.270e-04,0.999:-3.329e+00,-3.196e+00,-3.330e+00 +MT 1406 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=12995 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6470,0,0,0:0.00,0.00,0.00:6470:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.807e+00,-3.807e+00,-3.807e+00 ./././.:6324,1,34,0:1.563e-04,1.671e-04,1.561e-04:6359:base_quality;t_lod:29,13,5,0:343,429,381,0:60,60,60,0:27,27,0:-3.329e+00,-3.301e+00,-3.329e+00 +MT 1407 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13145 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6394,4,0,0:1.684e-04,1.547e-04,1.547e-04:6398:base_quality;t_lod:29,11,0,0:348,387,0,0:60,60,0,0:42,0,0:-3.473e+00,-3.510e+00,-3.510e+00 ./././.:6347,5,16,0:1.563e-04,2.098e-04,1.557e-04:6368:base_quality;t_lod:29,11,7,0:344,319,330,0:60,60,60,0:9,44,0:-3.329e+00,-3.196e+00,-3.330e+00 MT 1408 . A . . END=1409 GT:DP:MIN_DP:TLOD ./.:6471:6461:-3.796e+00 ./.:6499:6496:-3.800e+00 -MT 1410 . G T, . base_quality;t_lod CONTQ=93.00;DP=13162 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6419,6,0:1.825e-04,1.541e-04:6425:base_quality;t_lod:28,11,0:348,449,0:60,60,0:24,0:0.010,0.010,9.339e-04:1.445e-03,6.000e-05,0.998:-3.434e+00,-3.511e+00 ././.:6369,6,0:1.841e-04,1.553e-04:6375:base_quality;t_lod:28,12,0:345,392,0:60,60,0:39,0:0.010,0.010,9.412e-04:4.696e-04,8.344e-05,0.999:-3.431e+00,-3.508e+00 -MT 1411 . G T, . base_quality;t_lod CONTQ=93.00;DP=13046 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6484,0,0:0.00,0.00:6484:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.800e+00,-3.800e+00 ././.:6372,11,0:2.698e-04,1.552e-04:6383:base_quality;t_lod:28,12,0:345,347,0:60,60,0:15,0:0.010,0.010,1.723e-03:1.049e-04,6.015e-04,0.999:-3.260e+00,-3.508e+00 -MT 1412 . G T, . base_quality;t_lod CONTQ=93.00;DP=13125 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6425,6,0:1.653e-04,1.540e-04:6431:base_quality;t_lod:28,12,0:349,452,0:60,60,0:47,0:0.010,0.010,9.330e-04:1.445e-03,5.992e-05,0.998:-3.481e+00,-3.511e+00 ./.:6517,0,0:0.00,0.00:6517:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 -MT 1413 . T C,G, . base_quality;t_lod CONTQ=93.00;DP=13184 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6370,0,45,0:1.550e-04,4.319e-04,1.550e-04:6415:base_quality;t_lod:28,0,7,0:349,0,359,0:60,0,60,0:0,30,0:0.010,0.010,7.015e-03:8.632e-04,2.565e-04,0.999:-3.509e+00,-3.017e+00,-3.509e+00 ././.:6350,20,0,0:1.762e-04,1.556e-04,1.556e-04:6370:base_quality;t_lod:28,7,0,0:344,347,0,0:60,60,0,0:24,0,0:0.010,0.010,3.140e-03:0.020,7.226e-05,0.980:-3.453e+00,-3.507e+00,-3.507e+00 +MT 1410 . G T, . base_quality;t_lod CONTQ=93.00;DP=13162 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6419,6,0:1.825e-04,1.541e-04:6425:base_quality;t_lod:28,11,0:348,449,0:60,60,0:24,0:-3.434e+00,-3.511e+00 ././.:6369,6,0:1.841e-04,1.553e-04:6375:base_quality;t_lod:28,12,0:345,392,0:60,60,0:39,0:-3.431e+00,-3.508e+00 +MT 1411 . G T, . base_quality;t_lod CONTQ=93.00;DP=13046 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6484,0,0:0.00,0.00:6484:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.800e+00,-3.800e+00 ././.:6372,11,0:2.698e-04,1.552e-04:6383:base_quality;t_lod:28,12,0:345,347,0:60,60,0:15,0:-3.260e+00,-3.508e+00 +MT 1412 . G T, . base_quality;t_lod CONTQ=93.00;DP=13125 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6425,6,0:1.653e-04,1.540e-04:6431:base_quality;t_lod:28,12,0:349,452,0:60,60,0:47,0:-3.481e+00,-3.511e+00 ./.:6517,0,0:0.00,0.00:6517:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 +MT 1413 . T C,G, . base_quality;t_lod CONTQ=93.00;DP=13184 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6370,0,45,0:1.550e-04,4.319e-04,1.550e-04:6415:base_quality;t_lod:28,0,7,0:349,0,359,0:60,0,60,0:0,30,0:-3.509e+00,-3.017e+00,-3.509e+00 ././.:6350,20,0,0:1.762e-04,1.556e-04,1.556e-04:6370:base_quality;t_lod:28,7,0,0:344,347,0,0:60,60,0,0:24,0,0:-3.453e+00,-3.507e+00,-3.507e+00 MT 1414 . C . . END=1419 GT:DP:MIN_DP:TLOD ./.:6496:6401:-3.812e+00 ./.:6556:6463:-3.816e+00 -MT 1420 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13090 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6380,6,47,0:1.638e-04,4.221e-04,1.546e-04:6433:base_quality;t_lod:28,13,8,0:350,346,347,0:60,60,60,0:27,26,0:0.010,0.010,7.313e-03:0.838,1.246e-05,0.161:-3.309e+00,-2.866e+00,-3.334e+00 ./.:6556,0,0,0:0.00,0.00,0.00:6556:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00,-3.816e+00 +MT 1420 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13090 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6380,6,47,0:1.638e-04,4.221e-04,1.546e-04:6433:base_quality;t_lod:28,13,8,0:350,346,347,0:60,60,60,0:27,26,0:-3.309e+00,-2.866e+00,-3.334e+00 ./.:6556,0,0,0:0.00,0.00,0.00:6556:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.816e+00,-3.816e+00,-3.816e+00 MT 1421 . G . . . GT:DP:MIN_DP:TLOD ./.:6525:6521:-3.801e+00 ./.:6556:6463:-3.816e+00 -MT 1422 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13125 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6525,0,0,0:0.00,0.00,0.00:6525:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.801e+00,-3.801e+00,-3.801e+00 ./././.:6417,4,8,0:1.763e-04,1.605e-04,1.541e-04:6429:base_quality;t_lod:28,12,10,0:344,436,380,0:60,60,60,0:28,30,0:0.010,0.010,6.230e-04:1.405e-04,1.053e-04,1.000:-3.275e+00,-3.318e+00,-3.335e+00 +MT 1422 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13125 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6525,0,0,0:0.00,0.00,0.00:6525:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.801e+00,-3.801e+00,-3.801e+00 ./././.:6417,4,8,0:1.763e-04,1.605e-04,1.541e-04:6429:base_quality;t_lod:28,12,10,0:344,436,380,0:60,60,60,0:28,30,0:-3.275e+00,-3.318e+00,-3.335e+00 MT 1423 . A . . . GT:DP:MIN_DP:TLOD ./.:6525:6521:-3.801e+00 ./.:6593:6593:-3.482e+00 MT 1424 . T . . . GT:DP:MIN_DP:TLOD ./.:6525:6521:-3.801e+00 ./.:6593:6581:-3.795e+00 -MT 1425 . T G, . base_quality;t_lod CONTQ=93.00;DP=13226 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6440,23,0:2.308e-04,1.535e-04:6463:base_quality;t_lod:29,8,0:350,381,0:60,60,0:24,0:0.010,0.010,3.559e-03:1.222e-03,1.293e-04,0.999:-3.323e+00,-3.513e+00 ./.:6593,0,0:0.00,0.00:6593:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 -MT 1426 . T G, . base_quality;t_lod CONTQ=93.00;DP=13236 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6458,14,0:1.888e-04,1.531e-04:6472:base_quality;t_lod:29,8,0:350,435,0:60,60,0:40,0:0.010,0.010,2.163e-03:2.953e-04,1.999e-04,1.000:-3.421e+00,-3.514e+00 ./.:6593,0,0:0.00,0.00:6593:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 -MT 1427 . A T, . base_quality;t_lod CONTQ=93.00;DP=13186 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6566,0,0:0.00,0.00:6566:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00 ././.:6447,2,0:1.568e-04,1.534e-04:6449:base_quality;t_lod:29,15,0:344,424,0:60,60,0:27,0:0.010,0.010,3.101e-04:1.203e-04,9.561e-05,1.000:-3.504e+00,-3.513e+00 +MT 1425 . T G, . base_quality;t_lod CONTQ=93.00;DP=13226 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6440,23,0:2.308e-04,1.535e-04:6463:base_quality;t_lod:29,8,0:350,381,0:60,60,0:24,0:-3.323e+00,-3.513e+00 ./.:6593,0,0:0.00,0.00:6593:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 +MT 1426 . T G, . base_quality;t_lod CONTQ=93.00;DP=13236 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6458,14,0:1.888e-04,1.531e-04:6472:base_quality;t_lod:29,8,0:350,435,0:60,60,0:40,0:-3.421e+00,-3.514e+00 ./.:6593,0,0:0.00,0.00:6593:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 +MT 1427 . A T, . base_quality;t_lod CONTQ=93.00;DP=13186 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6566,0,0:0.00,0.00:6566:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.816e+00,-3.816e+00 ././.:6447,2,0:1.568e-04,1.534e-04:6449:base_quality;t_lod:29,15,0:344,424,0:60,60,0:27,0:-3.504e+00,-3.513e+00 MT 1428 . G . . . GT:DP:MIN_DP:TLOD ./.:6566:6554:-3.816e+00 ./.:6598:6598:-3.787e+00 -MT 1429 . C A, . base_quality;t_lod CONTQ=93.00;DP=13204 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6566,0,0:0.00,0.00:6566:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00 ././.:6456,8,0:1.545e-04,1.532e-04:6464:base_quality;t_lod:29,7,0:344,325,0:60,60,0:11,0:0.010,0.010,1.238e-03:2.302e-04,1.616e-04,1.000:-3.510e+00,-3.514e+00 +MT 1429 . C A, . base_quality;t_lod CONTQ=93.00;DP=13204 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6566,0,0:0.00,0.00:6566:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.816e+00,-3.816e+00 ././.:6456,8,0:1.545e-04,1.532e-04:6464:base_quality;t_lod:29,7,0:344,325,0:60,60,0:11,0:-3.510e+00,-3.514e+00 MT 1430 . A . . END=1432 GT:DP:MIN_DP:TLOD ./.:6566:6554:-3.816e+00 ./.:6618:6592:-3.807e+00 MT 1433 . A . . . GT:DP:MIN_DP:TLOD ./.:6611:6611:-3.385e+00 ./.:6618:6592:-3.807e+00 MT 1434 . A . . END=1437 GT:DP:MIN_DP:TLOD ./.:6605:6595:-3.799e+00 ./.:6618:6592:-3.807e+00 -MT 1438 . A G, . PASS CONTQ=93.00;DP=13413 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4,6561,0:1.00,1.509e-04:6565:11,28,0:357,350,0:60,60,0:37,0:0.990,0.990,0.999:0.019,0.040,0.941:21123.79,-3.520e+00 ././.:2,6492,0:1.00,1.525e-04:6494:15,28,0:283,343,0:60,60,0:37,0:0.990,0.990,1.000:0.027,0.027,0.946:20686.62,-3.516e+00 +MT 1438 . A G, . PASS CONTQ=93.00;DP=13413 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4,6561,0:1.00,1.509e-04:6565:11,28,0:357,350,0:60,60,0:37,0:21123.79,-3.520e+00 ././.:2,6492,0:1.00,1.525e-04:6494:15,28,0:283,343,0:60,60,0:37,0:20686.62,-3.516e+00 MT 1439 . A . . END=1442 GT:DP:MIN_DP:TLOD ./.:6576:6559:-3.796e+00 ./.:6581:6528:-3.816e+00 -MT 1443 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13248 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6444,8,58,0:1.578e-04,3.715e-04,1.529e-04:6510:base_quality;t_lod:28,12,8,0:350,384,371,0:60,60,60,0:20,19,0:0.010,0.010,8.920e-03:0.036,1.240e-04,0.964:-3.325e+00,-2.956e+00,-3.338e+00 ./.:6581,0,0,0:0.00,0.00,0.00:6581:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00,-3.816e+00 +MT 1443 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13248 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6444,8,58,0:1.578e-04,3.715e-04,1.529e-04:6510:base_quality;t_lod:28,12,8,0:350,384,371,0:60,60,60,0:20,19,0:-3.325e+00,-2.956e+00,-3.338e+00 ./.:6581,0,0,0:0.00,0.00,0.00:6581:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.816e+00,-3.816e+00,-3.816e+00 MT 1444 . A . . END=1447 GT:DP:MIN_DP:TLOD ./.:6567:6553:-3.801e+00 ./.:6581:6528:-3.816e+00 MT 1448 . T . . . GT:DP:MIN_DP:TLOD ./.:6550:6550:-3.466e+00 ./.:6581:6528:-3.816e+00 MT 1449 . G . . END=1451 GT:DP:MIN_DP:TLOD ./.:6545:6526:-3.799e+00 ./.:6581:6528:-3.816e+00 -MT 1452 . T G, . base_quality;t_lod CONTQ=93.00;DP=13171 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6550,0,0:0.00,0.00:6550:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.471e+00,-3.471e+00 ././.:6430,29,0:2.489e-04,1.540e-04:6459:base_quality;t_lod:29,9,0:343,341,0:60,60,0:25,0:0.010,0.010,4.490e-03:0.805,1.238e-05,0.195:-3.309e+00,-3.512e+00 +MT 1452 . T G, . base_quality;t_lod CONTQ=93.00;DP=13171 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6550,0,0:0.00,0.00:6550:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.471e+00,-3.471e+00 ././.:6430,29,0:2.489e-04,1.540e-04:6459:base_quality;t_lod:29,9,0:343,341,0:60,60,0:25,0:-3.309e+00,-3.512e+00 MT 1453 . A . . . GT:DP:MIN_DP:TLOD ./.:6551:6551:-3.810e+00 ./.:6591:6571:-3.735e+00 -MT 1454 . G T, . base_quality;t_lod CONTQ=93.00;DP=13218 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6571,2,0:1.516e-04,1.514e-04:6573:base_quality;t_lod:28,19,0:349,341,0:60,60,0:43,0:0.00,0.010,3.043e-04:3.922e-04,4.679e-05,1.000:-3.518e+00,-3.519e+00 ./.:6591,0,0:0.00,0.00:6591:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.735e+00,-3.735e+00 -MT 1455 . T G, . base_quality;t_lod CONTQ=93.00;DP=13215 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6558,2,0:1.518e-04,1.516e-04:6560:base_quality;t_lod:29,7,0:349,451,0:60,60,0:15,0:0.010,0.010,3.049e-04:1.089e-04,1.020e-04,1.000:-3.518e+00,-3.518e+00 ./.:6591,0,0:0.00,0.00:6591:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.735e+00,-3.735e+00 +MT 1454 . G T, . base_quality;t_lod CONTQ=93.00;DP=13218 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6571,2,0:1.516e-04,1.514e-04:6573:base_quality;t_lod:28,19,0:349,341,0:60,60,0:43,0:-3.518e+00,-3.519e+00 ./.:6591,0,0:0.00,0.00:6591:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.735e+00,-3.735e+00 +MT 1455 . T G, . base_quality;t_lod CONTQ=93.00;DP=13215 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6558,2,0:1.518e-04,1.516e-04:6560:base_quality;t_lod:29,7,0:349,451,0:60,60,0:15,0:-3.518e+00,-3.518e+00 ./.:6591,0,0:0.00,0.00:6591:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.735e+00,-3.735e+00 MT 1456 . T . . . GT:DP:MIN_DP:TLOD ./.:6531:6482:-3.812e+00 ./.:6591:6571:-3.735e+00 -MT 1457 . G C, . base_quality;t_lod CONTQ=93.00;DP=13107 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6531,0,0:0.00,0.00:6531:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.812e+00,-3.812e+00 ././.:6542,4,0:1.525e-04,1.521e-04:6546:base_quality;t_lod:28,9,0:342,442,0:60,60,0:7,0:0.010,0.010,6.111e-04:7.133e-05,2.762e-04,1.000:-3.516e+00,-3.517e+00 +MT 1457 . G C, . base_quality;t_lod CONTQ=93.00;DP=13107 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6531,0,0:0.00,0.00:6531:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.812e+00,-3.812e+00 ././.:6542,4,0:1.525e-04,1.521e-04:6546:base_quality;t_lod:28,9,0:342,442,0:60,60,0:7,0:-3.516e+00,-3.517e+00 MT 1458 . A . . . GT:DP:MIN_DP:TLOD ./.:6531:6482:-3.812e+00 ./.:6590:6590:-3.395e+00 MT 1459 . A . . END=1461 GT:DP:MIN_DP:TLOD ./.:6531:6482:-3.812e+00 ./.:6554:6529:-3.813e+00 -MT 1462 . G T, . base_quality;t_lod CONTQ=93.00;DP=13145 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6449,4,0:1.541e-04,1.537e-04:6453:base_quality;t_lod:28,11,0:348,414,0:60,60,0:56,0:0.010,0.010,6.199e-04:3.064e-04,6.944e-05,1.000:-3.511e+00,-3.512e+00 ./.:6554,0,0:0.00,0.00:6554:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.813e+00,-3.813e+00 -MT 1463 . G T, . base_quality;t_lod CONTQ=93.00;DP=13028 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:6510,3,0:1.536e-04,1.529e-04:6513:base_quality;t_lod:28,13,0:342,225,0:60,60,0:29,0:0.010,0.010,4.606e-04:8.023e-05,1.789e-04,1.000:-3.513e+00,-3.515e+00 +MT 1462 . G T, . base_quality;t_lod CONTQ=93.00;DP=13145 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6449,4,0:1.541e-04,1.537e-04:6453:base_quality;t_lod:28,11,0:348,414,0:60,60,0:56,0:-3.511e+00,-3.512e+00 ./.:6554,0,0:0.00,0.00:6554:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.813e+00,-3.813e+00 +MT 1463 . G T, . base_quality;t_lod CONTQ=93.00;DP=13028 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:6510,3,0:1.536e-04,1.529e-04:6513:base_quality;t_lod:28,13,0:342,225,0:60,60,0:29,0:-3.513e+00,-3.515e+00 MT 1464 . G . . END=1466 GT:DP:MIN_DP:TLOD ./.:6459:6432:-3.805e+00 ./.:6458:6451:-3.808e+00 -MT 1467 . C A, . base_quality;t_lod CONTQ=93.00;DP=13017 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:6399,6,0:1.833e-04,1.547e-04:6405:base_quality;t_lod:28,14,0:342,390,0:60,60,0:21,0:0.010,0.010,9.368e-04:1.607e-04,1.641e-04,1.000:-3.433e+00,-3.509e+00 -MT 1468 . T G, . base_quality;t_lod CONTQ=93.00;DP=13017 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:6376,27,0:1.615e-04,1.551e-04:6403:base_quality;t_lod:29,3,0:342,385,0:60,60,0:33,0:0.010,0.010,4.217e-03:5.749e-03,1.108e-04,0.994:-3.491e+00,-3.508e+00 +MT 1467 . C A, . base_quality;t_lod CONTQ=93.00;DP=13017 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:6399,6,0:1.833e-04,1.547e-04:6405:base_quality;t_lod:28,14,0:342,390,0:60,60,0:21,0:-3.433e+00,-3.509e+00 +MT 1468 . T G, . base_quality;t_lod CONTQ=93.00;DP=13017 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:6376,27,0:1.615e-04,1.551e-04:6403:base_quality;t_lod:29,3,0:342,385,0:60,60,0:33,0:-3.491e+00,-3.508e+00 MT 1469 . G . . END=1472 GT:DP:MIN_DP:TLOD ./.:6459:6432:-3.805e+00 ./.:6529:6481:-3.810e+00 -MT 1473 . C A, . base_quality;t_lod CONTQ=93.00;DP=13006 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:6373,10,0:2.853e-04,1.553e-04:6383:base_quality;t_lod:25,13,0:342,331,0:60,60,0:34,0:0.010,0.010,1.567e-03:1.824e-04,1.953e-04,1.000:-3.218e+00,-3.508e+00 +MT 1473 . C A, . base_quality;t_lod CONTQ=93.00;DP=13006 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6459,0,0:0.00,0.00:6459:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:6373,10,0:2.853e-04,1.553e-04:6383:base_quality;t_lod:25,13,0:342,331,0:60,60,0:34,0:-3.218e+00,-3.508e+00 MT 1474 . G . . . GT:DP:MIN_DP:TLOD ./.:6459:6432:-3.805e+00 ./.:6988:6984:-3.779e+00 -MT 1475 . C A, . base_quality;t_lod CONTQ=93.00;DP=13595 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6425,6,0:1.550e-04,1.543e-04:6431:base_quality;t_lod:25,13,0:348,356,0:60,60,0:31,0:0.010,0.010,9.330e-04:1.604e-04,1.627e-04,1.000:-3.509e+00,-3.511e+00 ./.:6988,0,0:0.00,0.00:6988:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.779e+00,-3.779e+00 +MT 1475 . C A, . base_quality;t_lod CONTQ=93.00;DP=13595 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6425,6,0:1.550e-04,1.543e-04:6431:base_quality;t_lod:25,13,0:348,356,0:60,60,0:31,0:-3.509e+00,-3.511e+00 ./.:6988,0,0:0.00,0.00:6988:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.779e+00,-3.779e+00 MT 1476 . G . . . GT:DP:MIN_DP:TLOD ./.:7016:6868:-3.828e+00 ./.:6908:6908:-3.314e+00 MT 1477 . T . . END=1484 GT:DP:MIN_DP:TLOD ./.:7016:6868:-3.828e+00 ./.:7028:6995:-3.830e+00 MT 1485 . G . . . GT:DP:MIN_DP:TLOD ./.:7016:6868:-3.828e+00 ./.:6893:6893:-3.074e+00 @@ -1490,35 +1486,35 @@ MT 2214 . A . . . GT:DP:MIN_DP:TLOD ./.:7184:7184:-3.017e+00 ./.:7124: MT 2215 . C . . . GT:DP:MIN_DP:TLOD ./.:7166:7123:-3.845e+00 ./.:7124:7096:-3.786e+00 MT 2216 . A . . . GT:DP:MIN_DP:TLOD ./.:7166:7123:-3.845e+00 ./.:7095:7095:-3.251e+00 MT 2217 . C . . END=2221 GT:DP:MIN_DP:TLOD ./.:7166:7123:-3.845e+00 ./.:7142:7119:-3.741e+00 -MT 2222 . T A, . base_quality;t_lod CONTQ=93.00;DP=13749 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6408,7,0:1.551e-04,1.543e-04:6415:base_quality;t_lod:29,10,0:340,255,0:60,60,0:23,0:0.010,0.010,1.091e-03:9.671e-05,4.714e-04,0.999:-3.508e+00,-3.511e+00 ./.:7142,0,0:0.00,0.00:7142:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.741e+00,-3.741e+00 +MT 2222 . T A, . base_quality;t_lod CONTQ=93.00;DP=13749 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6408,7,0:1.551e-04,1.543e-04:6415:base_quality;t_lod:29,10,0:340,255,0:60,60,0:23,0:-3.508e+00,-3.511e+00 ./.:7142,0,0:0.00,0.00:7142:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.741e+00,-3.741e+00 MT 2223 . A . . END=2225 GT:DP:MIN_DP:TLOD ./.:6497:6488:-3.809e+00 ./.:7151:7132:-3.453e+00 -MT 2226 . T A, . base_quality;t_lod CONTQ=93.00;DP=13776 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6451,7,0:1.542e-04,1.534e-04:6458:base_quality;t_lod:29,13,0:340,352,0:60,60,0:16,0:0.010,0.010,1.084e-03:6.431e-04,8.406e-05,0.999:-3.511e+00,-3.513e+00 ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.453e+00,-3.453e+00 +MT 2226 . T A, . base_quality;t_lod CONTQ=93.00;DP=13776 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6451,7,0:1.542e-04,1.534e-04:6458:base_quality;t_lod:29,13,0:340,352,0:60,60,0:16,0:-3.511e+00,-3.513e+00 ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.453e+00,-3.453e+00 MT 2227 . A . . . GT:DP:MIN_DP:TLOD ./.:6529:6523:-3.805e+00 ./.:7186:7186:-3.837e+00 MT 2228 . A . . . GT:DP:MIN_DP:TLOD ./.:6529:6523:-3.805e+00 ./.:7163:7163:-2.996e+00 MT 2229 . A . . . GT:DP:MIN_DP:TLOD ./.:6529:6523:-3.805e+00 ./.:7163:7138:-3.670e+00 -MT 2230 . A C, . base_quality;t_lod CONTQ=93.00;DP=13791 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6448,27,0:2.486e-04,1.534e-04:6475:base_quality;t_lod:29,8,0:340,386,0:60,60,0:53,0:0.010,0.010,4.170e-03:4.950e-05,0.303,0.697:-3.311e+00,-3.513e+00 ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.670e+00,-3.670e+00 +MT 2230 . A C, . base_quality;t_lod CONTQ=93.00;DP=13791 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6448,27,0:2.486e-04,1.534e-04:6475:base_quality;t_lod:29,8,0:340,386,0:60,60,0:53,0:-3.311e+00,-3.513e+00 ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.670e+00,-3.670e+00 MT 2231 . A . . . GT:DP:MIN_DP:TLOD ./.:6532:6532:-3.596e+00 ./.:7163:7138:-3.670e+00 -MT 2232 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13801 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6448,25,3,0:2.783e-04,1.535e-04,1.532e-04:6476:base_quality;t_lod:28,7,10,0:340,351,289,0:60,60,60,0:46,1,0:0.010,0.010,3.862e-03:3.059e-04,3.298e-04,0.999:-3.076e+00,-3.337e+00,-3.338e+00 ./.:7163,0,0,0:0.00,0.00,0.00:7163:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.670e+00,-3.670e+00,-3.670e+00 -MT 2233 . T A, . base_quality;t_lod CONTQ=93.00;DP=13768 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6423,11,0:1.550e-04,1.538e-04:6434:base_quality;t_lod:28,12,0:340,393,0:60,60,0:7,0:0.010,0.010,1.710e-03:2.632e-04,1.475e-04,1.000:-3.509e+00,-3.512e+00 ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.048e+00,-3.048e+00 +MT 2232 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13801 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6448,25,3,0:2.783e-04,1.535e-04,1.532e-04:6476:base_quality;t_lod:28,7,10,0:340,351,289,0:60,60,60,0:46,1,0:-3.076e+00,-3.337e+00,-3.338e+00 ./.:7163,0,0,0:0.00,0.00,0.00:7163:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.670e+00,-3.670e+00,-3.670e+00 +MT 2233 . T A, . base_quality;t_lod CONTQ=93.00;DP=13768 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6423,11,0:1.550e-04,1.538e-04:6434:base_quality;t_lod:28,12,0:340,393,0:60,60,0:7,0:-3.509e+00,-3.512e+00 ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.048e+00,-3.048e+00 MT 2234 . C . . END=2235 GT:DP:MIN_DP:TLOD ./.:6528:6525:-3.663e+00 ./.:7173:7145:-3.702e+00 -MT 2236 . C A, . base_quality;t_lod CONTQ=93.00;DP=13818 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6484,8,0:1.879e-04,1.526e-04:6492:base_quality;t_lod:28,14,0:341,350,0:60,60,0:23,0:0.010,0.010,1.232e-03:3.919e-03,5.890e-05,0.996:-3.423e+00,-3.516e+00 ./.:7173,0,0:0.00,0.00:7173:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.702e+00,-3.702e+00 +MT 2236 . C A, . base_quality;t_lod CONTQ=93.00;DP=13818 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6484,8,0:1.879e-04,1.526e-04:6492:base_quality;t_lod:28,14,0:341,350,0:60,60,0:23,0:-3.423e+00,-3.516e+00 ./.:7173,0,0:0.00,0.00:7173:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.702e+00,-3.702e+00 MT 2237 . A . . . GT:DP:MIN_DP:TLOD ./.:6549:6549:-3.758e+00 ./.:7173:7145:-3.702e+00 MT 2238 . A . . . GT:DP:MIN_DP:TLOD ./.:6549:6549:-3.758e+00 ./.:7187:7187:-2.836e+00 -MT 2239 . A C, . base_quality;t_lod CONTQ=93.00;DP=13853 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6482,21,0:1.633e-04,1.525e-04:6503:base_quality;t_lod:29,7,0:340,373,0:60,60,0:46,0:0.010,0.010,3.229e-03:7.313e-05,0.023,0.977:-3.487e+00,-3.516e+00 ./.:7176,0,0:0.00,0.00:7176:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.806e+00,-3.806e+00 +MT 2239 . A C, . base_quality;t_lod CONTQ=93.00;DP=13853 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6482,21,0:1.633e-04,1.525e-04:6503:base_quality;t_lod:29,7,0:340,373,0:60,60,0:46,0:-3.487e+00,-3.516e+00 ./.:7176,0,0:0.00,0.00:7176:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.806e+00,-3.806e+00 MT 2240 . C . . END=2241 GT:DP:MIN_DP:TLOD ./.:6545:6526:-3.810e+00 ./.:7176:7161:-3.806e+00 MT 2242 . T . . . GT:DP:MIN_DP:TLOD ./.:6545:6526:-3.810e+00 ./.:7140:7140:-2.781e+00 MT 2243 . A . . END=2245 GT:DP:MIN_DP:TLOD ./.:6545:6526:-3.810e+00 ./.:7120:7070:-3.807e+00 -MT 2246 . A C, . base_quality;t_lod CONTQ=93.00;DP=13798 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6524,23,0:1.669e-04,1.517e-04:6547:base_quality;t_lod:28,7,0:341,369,0:60,60,0:35,0:0.010,0.010,3.513e-03:6.518e-05,0.075,0.925:-3.478e+00,-3.518e+00 ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 +MT 2246 . A C, . base_quality;t_lod CONTQ=93.00;DP=13798 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6524,23,0:1.669e-04,1.517e-04:6547:base_quality;t_lod:28,7,0:341,369,0:60,60,0:35,0:-3.478e+00,-3.518e+00 ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 MT 2247 . C . . . GT:DP:MIN_DP:TLOD ./.:6545:6545:-3.814e+00 ./.:7120:7070:-3.807e+00 -MT 2248 . T A, . base_quality;t_lod CONTQ=93.00;DP=13805 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6531,11,0:1.696e-04,1.515e-04:6542:base_quality;t_lod:29,13,0:341,448,0:60,60,0:52,0:0.010,0.010,1.681e-03:8.374e-05,1.043e-03,0.999:-3.469e+00,-3.518e+00 ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 +MT 2248 . T A, . base_quality;t_lod CONTQ=93.00;DP=13805 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6531,11,0:1.696e-04,1.515e-04:6542:base_quality;t_lod:29,13,0:341,448,0:60,60,0:52,0:-3.469e+00,-3.518e+00 ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 MT 2249 . G . . END=2250 GT:DP:MIN_DP:TLOD ./.:6527:6507:-3.784e+00 ./.:7120:7070:-3.807e+00 -MT 2251 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13805 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6473,64,11,0:3.500e-04,1.709e-04,1.525e-04:6548:base_quality;t_lod:28,7,12,0:342,438,416,0:60,60,60,0:28,49,0:0.010,0.010,9.790e-03:4.494e-10,1.000,6.946e-06:-2.998e+00,-3.290e+00,-3.340e+00 ./.:7076,0,0,0:0.00,0.00,0.00:7076:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.762e+00,-2.762e+00,-2.762e+00 +MT 2251 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13805 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6473,64,11,0:3.500e-04,1.709e-04,1.525e-04:6548:base_quality;t_lod:28,7,12,0:342,438,416,0:60,60,60,0:28,49,0:-2.998e+00,-3.290e+00,-3.340e+00 ./.:7076,0,0,0:0.00,0.00,0.00:7076:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.762e+00,-2.762e+00,-2.762e+00 MT 2252 . C . . . GT:DP:MIN_DP:TLOD ./.:6499:6499:-3.730e+00 ./.:7095:7062:-3.722e+00 -MT 2253 . T A, . base_quality;t_lod CONTQ=93.00;DP=13801 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6511,9,0:1.528e-04,1.518e-04:6520:base_quality;t_lod:28,12,0:342,426,0:60,60,0:11,0:0.010,0.010,1.380e-03:1.439e-04,2.600e-04,1.000:-3.515e+00,-3.518e+00 ./.:7095,0,0:0.00,0.00:7095:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.722e+00,-3.722e+00 +MT 2253 . T A, . base_quality;t_lod CONTQ=93.00;DP=13801 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6511,9,0:1.528e-04,1.518e-04:6520:base_quality;t_lod:28,12,0:342,426,0:60,60,0:11,0:-3.515e+00,-3.518e+00 ./.:7095,0,0:0.00,0.00:7095:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.722e+00,-3.722e+00 MT 2254 . C . . END=2255 GT:DP:MIN_DP:TLOD ./.:6579:6562:-3.819e+00 ./.:7095:7062:-3.722e+00 MT 2256 . T . . . GT:DP:MIN_DP:TLOD ./.:6579:6562:-3.819e+00 ./.:7125:7125:-3.318e+00 MT 2257 . C . . END=2258 GT:DP:MIN_DP:TLOD ./.:6579:6562:-3.819e+00 ./.:7159:7149:-3.773e+00 -MT 2259 . C T, . PASS CONTQ=93.00;DP=13888 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:23,6545,0:0.999,1.512e-04:6568:6,29,0:389,341,0:60,60,0:37,0:0.990,0.990,0.996:0.011,0.089,0.900:21385.76,-3.519e+00 ./.:7153,0,0:0.00,0.00:7153:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:6.45,6.45 +MT 2259 . C T, . PASS CONTQ=93.00;DP=13888 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:23,6545,0:0.999,1.512e-04:6568:6,29,0:389,341,0:60,60,0:37,0:21385.76,-3.519e+00 ./.:7153,0,0:0.00,0.00:7153:.,.,.:.,.,.:.,.,.:.,.:6.45,6.45 MT 2260 . A . . END=2264 GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7194:7164:-3.752e+00 MT 2265 . A . . . GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7117:7117:-2.921e+00 MT 2266 . T . . . GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7083:7083:-3.288e+00 @@ -1526,14 +1522,14 @@ MT 2267 . T . . . GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7092: MT 2268 . G . . END=2269 GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7068:7066:-3.375e+00 MT 2270 . A . . . GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7142:7142:-3.806e+00 MT 2271 . C . . . GT:DP:MIN_DP:TLOD ./.:6532:6466:-3.808e+00 ./.:7091:7091:-3.411e+00 -MT 2272 . C A, . base_quality;t_lod CONTQ=93.00;DP=13794 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6486,15,0:1.855e-04,1.527e-04:6501:base_quality;t_lod:28,13,0:339,370,0:60,60,0:46,0:0.010,0.010,2.307e-03:5.408e-03,7.955e-05,0.995:-3.432e+00,-3.515e+00 ./.:7149,0,0:0.00,0.00:7149:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.670e+00,-3.670e+00 -MT 2273 . A C, . base_quality;t_lod CONTQ=93.00;DP=13802 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6498,11,0:1.751e-04,1.524e-04:6509:base_quality;t_lod:29,7,0:339,432,0:60,60,0:44,0:0.010,0.010,1.690e-03:1.413e-04,2.708e-04,1.000:-3.454e+00,-3.516e+00 ./.:7149,0,0:0.00,0.00:7149:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.670e+00,-3.670e+00 +MT 2272 . C A, . base_quality;t_lod CONTQ=93.00;DP=13794 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6486,15,0:1.855e-04,1.527e-04:6501:base_quality;t_lod:28,13,0:339,370,0:60,60,0:46,0:-3.432e+00,-3.515e+00 ./.:7149,0,0:0.00,0.00:7149:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.670e+00,-3.670e+00 +MT 2273 . A C, . base_quality;t_lod CONTQ=93.00;DP=13802 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6498,11,0:1.751e-04,1.524e-04:6509:base_quality;t_lod:29,7,0:339,432,0:60,60,0:44,0:-3.454e+00,-3.516e+00 ./.:7149,0,0:0.00,0.00:7149:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.670e+00,-3.670e+00 MT 2274 . A . . . GT:DP:MIN_DP:TLOD ./.:6531:6509:-3.796e+00 ./.:7149:7127:-3.670e+00 MT 2275 . T . . . GT:DP:MIN_DP:TLOD ./.:6531:6509:-3.796e+00 ./.:7081:7081:-3.266e+00 MT 2276 . C . . END=2280 GT:DP:MIN_DP:TLOD ./.:6531:6509:-3.796e+00 ./.:7122:7064:-3.728e+00 -MT 2281 . A C, . base_quality;t_lod CONTQ=93.00;DP=13857 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6593,9,0:1.663e-04,1.507e-04:6602:base_quality;t_lod:28,8,0:340,318,0:60,60,0:2,0:0.010,0.00,1.363e-03:4.247e-05,0.072,0.928:-3.479e+00,-3.521e+00 ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.399e+00,-3.399e+00 +MT 2281 . A C, . base_quality;t_lod CONTQ=93.00;DP=13857 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6593,9,0:1.663e-04,1.507e-04:6602:base_quality;t_lod:28,8,0:340,318,0:60,60,0:2,0:-3.479e+00,-3.521e+00 ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.399e+00,-3.399e+00 MT 2282 . C . . . GT:DP:MIN_DP:TLOD ./.:6541:6541:-3.815e+00 ./.:7197:7143:-3.800e+00 -MT 2283 . C A, . base_quality;t_lod CONTQ=93.00;DP=13854 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6520,12,0:3.114e-04,1.517e-04:6532:base_quality;t_lod:28,14,0:339,368,0:60,60,0:39,0:0.010,0.010,1.837e-03:1.209e-03,8.718e-05,0.999:-3.176e+00,-3.518e+00 ./.:7197,0,0:0.00,0.00:7197:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.800e+00,-3.800e+00 +MT 2283 . C A, . base_quality;t_lod CONTQ=93.00;DP=13854 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6520,12,0:3.114e-04,1.517e-04:6532:base_quality;t_lod:28,14,0:339,368,0:60,60,0:39,0:-3.176e+00,-3.518e+00 ./.:7197,0,0:0.00,0.00:7197:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.800e+00,-3.800e+00 MT 2284 . C . . . GT:DP:MIN_DP:TLOD ./.:7205:7205:-3.365e+00 ./.:7197:7143:-3.800e+00 MT 2285 . T . . . GT:DP:MIN_DP:TLOD ./.:7203:7187:-3.821e+00 ./.:7191:7191:-3.477e+00 MT 2286 . A . . END=2289 GT:DP:MIN_DP:TLOD ./.:7203:7187:-3.821e+00 ./.:7196:7175:-3.797e+00 @@ -1558,11 +1554,11 @@ MT 2319 . A . . . GT:DP:MIN_DP:TLOD ./.:7168:7168:-2.815e+00 ./.:7212: MT 2320 . A . . . GT:DP:MIN_DP:TLOD ./.:7165:7165:-3.315e+00 ./.:7212:7191:-3.783e+00 MT 2321 . A . . END=2322 GT:DP:MIN_DP:TLOD ./.:7091:7047:-3.650e+00 ./.:7131:7097:-3.354e+00 MT 2323 . A . . END=2324 GT:DP:MIN_DP:TLOD ./.:7091:7047:-3.650e+00 ./.:7111:7070:-3.779e+00 -MT 2325 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=13640 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7023,0,0,0:0.00,0.00,0.00:7023:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.607e+00,-2.607e+00,-2.607e+00 ./././.:6336,20,50,0:1.697e-04,1.695e-04,1.558e-04:6406:base_quality;t_lod:28,12,7,0:338,383,363,0:60,60,60,0:25,22,0:0.010,0.010,3.147e-03:9.089e-05,4.571e-03,0.995:-3.294e+00,-3.295e+00,-3.330e+00 +MT 2325 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=13640 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7023,0,0,0:0.00,0.00,0.00:7023:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.607e+00,-2.607e+00,-2.607e+00 ./././.:6336,20,50,0:1.697e-04,1.695e-04,1.558e-04:6406:base_quality;t_lod:28,12,7,0:338,383,363,0:60,60,60,0:25,22,0:-3.294e+00,-3.295e+00,-3.330e+00 MT 2326 . C . . . GT:DP:MIN_DP:TLOD ./.:7065:7009:-3.850e+00 ./.:6533:6533:-3.749e+00 -MT 2327 . T A, . base_quality;t_lod CONTQ=93.00;DP=13618 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.850e+00,-3.850e+00 ././.:6370,13,0:1.649e-04,1.552e-04:6383:base_quality;t_lod:28,11,0:338,324,0:60,60,0:44,0:0.010,0.010,2.037e-03:1.447e-04,4.129e-04,0.999:-3.482e+00,-3.508e+00 +MT 2327 . T A, . base_quality;t_lod CONTQ=93.00;DP=13618 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.850e+00,-3.850e+00 ././.:6370,13,0:1.649e-04,1.552e-04:6383:base_quality;t_lod:28,11,0:338,324,0:60,60,0:44,0:-3.482e+00,-3.508e+00 MT 2328 . C . . . GT:DP:MIN_DP:TLOD ./.:7065:7009:-3.850e+00 ./.:6524:6524:-3.356e+00 -MT 2329 . C A, . base_quality;t_lod CONTQ=93.00;DP=13617 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.850e+00,-3.850e+00 ././.:6428,5,0:1.546e-04,1.541e-04:6433:base_quality;t_lod:28,12,0:338,459,0:60,60,0:33,0:0.010,0.010,7.772e-04:2.071e-04,9.933e-05,1.000:-3.510e+00,-3.511e+00 +MT 2329 . C A, . base_quality;t_lod CONTQ=93.00;DP=13617 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.850e+00,-3.850e+00 ././.:6428,5,0:1.546e-04,1.541e-04:6433:base_quality;t_lod:28,12,0:338,459,0:60,60,0:33,0:-3.510e+00,-3.511e+00 MT 2330 . T . . END=2332 GT:DP:MIN_DP:TLOD ./.:7065:7009:-3.850e+00 ./.:6582:6447:-3.815e+00 MT 2333 . G . . . GT:DP:MIN_DP:TLOD ./.:6865:6865:-3.476e+00 ./.:6582:6447:-3.815e+00 MT 2334 . C . . END=2335 GT:DP:MIN_DP:TLOD ./.:7101:7072:-3.838e+00 ./.:6582:6447:-3.815e+00 @@ -1574,26 +1570,26 @@ MT 2345 . G . . . GT:DP:MIN_DP:TLOD ./.:6891:6891:-3.448e+00 ./.:6582: MT 2346 . T . . . GT:DP:MIN_DP:TLOD ./.:7066:7052:-3.824e+00 ./.:6582:6447:-3.815e+00 MT 2347 . C . . . GT:DP:MIN_DP:TLOD ./.:7066:7052:-3.824e+00 ./.:6623:6623:-2.906e+00 MT 2348 . A . . END=2351 GT:DP:MIN_DP:TLOD ./.:7066:7052:-3.824e+00 ./.:6645:6635:-3.820e+00 -MT 2352 . T C,A, . PASS CONTQ=93.00;DP=13768 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7074,0,0,0:0.00,0.00,0.00:7074:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-1.127e+00,-1.127e+00,-1.127e+00 ./././.:26,6505,11,0:0.996,1.530e-04,1.518e-04:6542:28,28,11,0:256,338,370,0:60,60,60,0:37,27,0:0.990,0.990,0.996:0.028,0.019,0.953:20632.13,-3.338e+00,-3.342e+00 +MT 2352 . T C,A, . PASS CONTQ=93.00;DP=13768 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7074,0,0,0:0.00,0.00,0.00:7074:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-1.127e+00,-1.127e+00,-1.127e+00 ./././.:26,6505,11,0:0.996,1.530e-04,1.518e-04:6542:28,28,11,0:256,338,370,0:60,60,60,0:37,27,0:20632.13,-3.338e+00,-3.342e+00 MT 2353 . A . . END=2354 GT:DP:MIN_DP:TLOD ./.:7113:7110:-3.706e+00 ./.:6680:6678:-3.807e+00 MT 2355 . A . . . GT:DP:MIN_DP:TLOD ./.:7111:7109:-3.488e+00 ./.:6668:6668:-3.344e+00 MT 2356 . A . . . GT:DP:MIN_DP:TLOD ./.:7111:7109:-3.488e+00 ./.:6616:6600:-3.813e+00 MT 2357 . C . . . GT:DP:MIN_DP:TLOD ./.:7052:7052:-3.780e+00 ./.:6616:6600:-3.813e+00 MT 2358 . A . . . GT:DP:MIN_DP:TLOD ./.:7121:7121:-3.297e+00 ./.:6616:6600:-3.813e+00 MT 2359 . C . . END=2360 GT:DP:MIN_DP:TLOD ./.:7071:7068:-3.691e+00 ./.:6616:6600:-3.813e+00 -MT 2361 . G A, . base_quality;t_lod CONTQ=93.00;DP=13708 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7059,0,0:0.00,0.00:7059:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.428e+00,-3.428e+00 ././.:6450,17,0:1.729e-04,1.535e-04:6467:base_quality;t_lod:28,10,0:338,391,0:60,60,0:13,0:0.010,0.010,2.629e-03:4.014e-03,8.863e-05,0.996:-3.461e+00,-3.513e+00 +MT 2361 . G A, . base_quality;t_lod CONTQ=93.00;DP=13708 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7059,0,0:0.00,0.00:7059:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.428e+00,-3.428e+00 ././.:6450,17,0:1.729e-04,1.535e-04:6467:base_quality;t_lod:28,10,0:338,391,0:60,60,0:13,0:-3.461e+00,-3.513e+00 MT 2362 . A . . END=2364 GT:DP:MIN_DP:TLOD ./.:7071:7030:-3.756e+00 ./.:6604:6568:-3.812e+00 -MT 2365 . T A, . base_quality;t_lod CONTQ=93.00;DP=13650 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.756e+00,-3.756e+00 ././.:6414,10,0:1.553e-04,1.542e-04:6424:base_quality;t_lod:29,12,0:338,405,0:60,60,0:26,0:0.010,0.010,1.557e-03:6.671e-03,6.111e-05,0.993:-3.508e+00,-3.511e+00 +MT 2365 . T A, . base_quality;t_lod CONTQ=93.00;DP=13650 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.756e+00,-3.756e+00 ././.:6414,10,0:1.553e-04,1.542e-04:6424:base_quality;t_lod:29,12,0:338,405,0:60,60,0:26,0:-3.508e+00,-3.511e+00 MT 2366 . G . . . GT:DP:MIN_DP:TLOD ./.:7074:7074:-2.268e+00 ./.:6545:6511:-3.804e+00 MT 2367 . A . . END=2370 GT:DP:MIN_DP:TLOD ./.:7099:7063:-3.802e+00 ./.:6545:6511:-3.804e+00 MT 2371 . T . . END=2373 GT:DP:MIN_DP:TLOD ./.:7072:7071:-3.485e+00 ./.:6545:6511:-3.804e+00 MT 2374 . A . . END=2376 GT:DP:MIN_DP:TLOD ./.:7043:6957:-3.796e+00 ./.:6545:6511:-3.804e+00 -MT 2377 . G T, . base_quality;t_lod CONTQ=93.00;DP=13508 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7043,0,0:0.00,0.00:7043:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 ././.:6355,8,0:1.567e-04,1.558e-04:6363:base_quality;t_lod:28,13,0:338,340,0:60,60,0:26,0:0.010,0.010,1.257e-03:2.889e-04,1.382e-04,1.000:-3.504e+00,-3.507e+00 +MT 2377 . G T, . base_quality;t_lod CONTQ=93.00;DP=13508 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7043,0,0:0.00,0.00:7043:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 ././.:6355,8,0:1.567e-04,1.558e-04:6363:base_quality;t_lod:28,13,0:338,340,0:60,60,0:26,0:-3.504e+00,-3.507e+00 MT 2378 . C . . . GT:DP:MIN_DP:TLOD ./.:7043:6957:-3.796e+00 ./.:6505:6505:-3.771e+00 -MT 2379 . C G, . base_quality;t_lod CONTQ=93.00;DP=13561 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.415e+00,-3.415e+00 ././.:6356,4,0:1.670e-04,1.557e-04:6360:base_quality;t_lod:28,13,0:338,371,0:60,60,0:43,0:0.010,0.010,6.289e-04:2.430e-04,8.011e-05,1.000:-3.476e+00,-3.507e+00 +MT 2379 . C G, . base_quality;t_lod CONTQ=93.00;DP=13561 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.415e+00,-3.415e+00 ././.:6356,4,0:1.670e-04,1.557e-04:6360:base_quality;t_lod:28,13,0:338,371,0:60,60,0:43,0:-3.476e+00,-3.507e+00 MT 2380 . C . . . GT:DP:MIN_DP:TLOD ./.:7046:7023:-3.415e+00 ./.:6488:6458:-3.794e+00 MT 2381 . A . . END=2384 GT:DP:MIN_DP:TLOD ./.:7036:6989:-3.832e+00 ./.:6488:6458:-3.794e+00 -MT 2385 . T A, . base_quality;t_lod CONTQ=93.00;DP=13527 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7036,0,0:0.00,0.00:7036:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:6325,7,0:2.084e-04,1.564e-04:6332:base_quality;t_lod:28,12,0:338,341,0:60,60,0:33,0:0.010,0.010,1.105e-03:4.053e-04,1.064e-04,0.999:-3.378e+00,-3.505e+00 +MT 2385 . T A, . base_quality;t_lod CONTQ=93.00;DP=13527 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7036,0,0:0.00,0.00:7036:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:6325,7,0:2.084e-04,1.564e-04:6332:base_quality;t_lod:28,12,0:338,341,0:60,60,0:33,0:-3.378e+00,-3.505e+00 MT 2386 . C . . END=2391 GT:DP:MIN_DP:TLOD ./.:7036:6989:-3.832e+00 ./.:7081:7058:-3.823e+00 MT 2392 . T . . . GT:DP:MIN_DP:TLOD ./.:7036:6989:-3.832e+00 ./.:7058:7058:-3.275e+00 MT 2393 . C . . . GT:DP:MIN_DP:TLOD ./.:7036:6989:-3.832e+00 ./.:7095:7095:-3.683e+00 @@ -1732,46 +1728,46 @@ MT 2659 . C . . END=2664 GT:DP:MIN_DP:TLOD ./.:7219:7184:-3.841e+00 ./ MT 2665 . T . . . GT:DP:MIN_DP:TLOD ./.:7206:7206:-3.445e+00 ./.:7213:7158:-3.844e+00 MT 2666 . T . . END=2673 GT:DP:MIN_DP:TLOD ./.:7206:7142:-3.789e+00 ./.:7213:7158:-3.844e+00 MT 2674 . T . . . GT:DP:MIN_DP:TLOD ./.:7173:7173:-3.105e+00 ./.:7185:7185:-3.318e+00 -MT 2675 . G T, . base_quality;t_lod CONTQ=93.00;DP=13847 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7193,0,0:0.00,0.00:7193:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:6482,4,0:1.626e-04,1.528e-04:6486:base_quality;t_lod:28,12,0:339,232,0:60,60,0:19,0:0.010,0.010,6.167e-04:1.455e-04,1.002e-04,1.000:-3.488e+00,-3.515e+00 +MT 2675 . G T, . base_quality;t_lod CONTQ=93.00;DP=13847 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7193,0,0:0.00,0.00:7193:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:6482,4,0:1.626e-04,1.528e-04:6486:base_quality;t_lod:28,12,0:339,232,0:60,60,0:19,0:-3.488e+00,-3.515e+00 MT 2676 . A . . . GT:DP:MIN_DP:TLOD ./.:7193:7182:-3.832e+00 ./.:6634:6634:-3.753e+00 -MT 2677 . A C, . base_quality;t_lod CONTQ=93.00;DP=13845 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7193,0,0:0.00,0.00:7193:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:6469,9,0:1.621e-04,1.528e-04:6478:base_quality;t_lod:29,5,0:339,398,0:60,60,0:20,0:0.010,0.010,1.389e-03:2.463e-03,6.496e-05,0.997:-3.489e+00,-3.515e+00 +MT 2677 . A C, . base_quality;t_lod CONTQ=93.00;DP=13845 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7193,0,0:0.00,0.00:7193:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:6469,9,0:1.621e-04,1.528e-04:6478:base_quality;t_lod:29,5,0:339,398,0:60,60,0:20,0:-3.489e+00,-3.515e+00 MT 2678 . A . . END=2679 GT:DP:MIN_DP:TLOD ./.:7193:7182:-3.832e+00 ./.:6628:6620:-3.816e+00 MT 2680 . T . . . GT:DP:MIN_DP:TLOD ./.:7195:7195:-3.325e+00 ./.:6628:6620:-3.816e+00 MT 2681 . G . . . GT:DP:MIN_DP:TLOD ./.:7190:7147:-3.821e+00 ./.:6628:6620:-3.816e+00 -MT 2682 . A T, . base_quality;t_lod CONTQ=93.00;DP=13815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7190,0,0:0.00,0.00:7190:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.821e+00,-3.821e+00 ././.:6470,7,0:1.561e-04,1.529e-04:6477:base_quality;t_lod:28,12,0:339,387,0:60,60,0:24,0:0.010,0.010,1.081e-03:1.681e-04,1.977e-04,1.000:-3.506e+00,-3.514e+00 +MT 2682 . A T, . base_quality;t_lod CONTQ=93.00;DP=13815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7190,0,0:0.00,0.00:7190:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.821e+00,-3.821e+00 ././.:6470,7,0:1.561e-04,1.529e-04:6477:base_quality;t_lod:28,12,0:339,387,0:60,60,0:24,0:-3.506e+00,-3.514e+00 MT 2683 . C . . . GT:DP:MIN_DP:TLOD ./.:7190:7147:-3.821e+00 ./.:6593:6593:-3.787e+00 -MT 2684 . C A, . base_quality;t_lod CONTQ=93.00;DP=13815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7190,0,0:0.00,0.00:7190:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.821e+00,-3.821e+00 ././.:6493,4,0:1.800e-04,1.525e-04:6497:base_quality;t_lod:28,11,0:340,283,0:60,60,0:31,0:0.010,0.010,6.157e-04:1.410e-04,1.024e-04,1.000:-3.441e+00,-3.516e+00 +MT 2684 . C A, . base_quality;t_lod CONTQ=93.00;DP=13815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7190,0,0:0.00,0.00:7190:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.821e+00,-3.821e+00 ././.:6493,4,0:1.800e-04,1.525e-04:6497:base_quality;t_lod:28,11,0:340,283,0:60,60,0:31,0:-3.441e+00,-3.516e+00 MT 2685 . T . . . GT:DP:MIN_DP:TLOD ./.:7190:7147:-3.821e+00 ./.:6611:6591:-3.814e+00 MT 2686 . G . . . GT:DP:MIN_DP:TLOD ./.:7129:7129:-3.416e+00 ./.:6611:6591:-3.814e+00 MT 2687 . C . . END=2688 GT:DP:MIN_DP:TLOD ./.:7174:7083:-3.844e+00 ./.:6611:6591:-3.814e+00 MT 2689 . C . . . GT:DP:MIN_DP:TLOD ./.:7174:7083:-3.844e+00 ./.:6611:6611:-2.962e+00 MT 2690 . G . . END=2696 GT:DP:MIN_DP:TLOD ./.:7174:7083:-3.844e+00 ./.:6670:6621:-3.823e+00 -MT 2697 . G T, . base_quality;t_lod CONTQ=93.00;DP=13836 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7174,0,0:0.00,0.00:7174:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.844e+00,-3.844e+00 ././.:6554,9,0:1.532e-04,1.509e-04:6563:base_quality;t_lod:28,13,0:340,361,0:60,60,0:37,0:0.010,0.010,1.371e-03:6.920e-04,8.836e-05,0.999:-3.514e+00,-3.520e+00 +MT 2697 . G T, . base_quality;t_lod CONTQ=93.00;DP=13836 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7174,0,0:0.00,0.00:7174:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.844e+00,-3.844e+00 ././.:6554,9,0:1.532e-04,1.509e-04:6563:base_quality;t_lod:28,13,0:340,361,0:60,60,0:37,0:-3.514e+00,-3.520e+00 MT 2698 . G . . END=2699 GT:DP:MIN_DP:TLOD ./.:7174:7083:-3.844e+00 ./.:6616:6602:-3.772e+00 MT 2700 . G . . . GT:DP:MIN_DP:TLOD ./.:7174:7083:-3.844e+00 ./.:6646:6646:-3.287e+00 MT 2701 . G . . END=2705 GT:DP:MIN_DP:TLOD ./.:7174:7083:-3.844e+00 ./.:6666:6649:-3.771e+00 -MT 2706 . A G, . PASS CONTQ=93.00;DP=14018 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7260,0,0:0.00,0.00:7260:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:0.697,0.697 ././.:26,6559,0:0.996,1.505e-04:6585:29,28,0:309,340,0:60,60,0:36,0:0.990,0.990,0.996:0.027,0.020,0.954:20727.39,-3.521e+00 +MT 2706 . A G, . PASS CONTQ=93.00;DP=14018 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7260,0,0:0.00,0.00:7260:.,.,.:.,.,.:.,.,.:.,.:0.697,0.697 ././.:26,6559,0:0.996,1.505e-04:6585:29,28,0:309,340,0:60,60,0:36,0:20727.39,-3.521e+00 MT 2707 . A . . END=2709 GT:DP:MIN_DP:TLOD ./.:7234:7182:-3.847e+00 ./.:6686:6666:-3.823e+00 -MT 2710 . C CCGCA, . t_lod CONTQ=93.00;DP=13934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7234,0,0:0.00,0.00:7234:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.847e+00,-3.847e+00 ././.:6543,1,0:1.508e-04,1.507e-04:6544:t_lod:28,23,0:339,375,0:60,60,0:0,0:0.010,0.00,1.528e-04:5.200e-05,1.207e-04,1.000:-3.521e+00,-3.521e+00 +MT 2710 . C CCGCA, . t_lod CONTQ=93.00;DP=13934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7234,0,0:0.00,0.00:7234:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.847e+00,-3.847e+00 ././.:6543,1,0:1.508e-04,1.507e-04:6544:t_lod:28,23,0:339,375,0:60,60,0:0,0:-3.521e+00,-3.521e+00 MT 2711 . A . . END=2713 GT:DP:MIN_DP:TLOD ./.:7234:7182:-3.847e+00 ./.:6705:6691:-3.822e+00 -MT 2714 . A C, . base_quality;t_lod CONTQ=93.00;DP=14023 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7266,0,0:0.00,0.00:7266:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.870e+00,-2.870e+00 ././.:6555,18,0:1.527e-04,1.508e-04:6573:base_quality;t_lod:29,8,0:339,357,0:60,60,0:33,0:0.010,0.010,2.738e-03:1.056e-04,1.742e-03,0.998:-3.515e+00,-3.521e+00 -MT 2715 . A C, . base_quality;t_lod CONTQ=93.00;DP=13888 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.842e+00,-3.842e+00 ././.:6578,11,0:2.241e-04,1.504e-04:6589:base_quality;t_lod:29,6,0:339,316,0:60,60,0:43,0:0.010,0.010,1.669e-03:1.819e-04,1.926e-04,1.000:-3.342e+00,-3.522e+00 +MT 2714 . A C, . base_quality;t_lod CONTQ=93.00;DP=14023 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7266,0,0:0.00,0.00:7266:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.870e+00,-2.870e+00 ././.:6555,18,0:1.527e-04,1.508e-04:6573:base_quality;t_lod:29,8,0:339,357,0:60,60,0:33,0:-3.515e+00,-3.521e+00 +MT 2715 . A C, . base_quality;t_lod CONTQ=93.00;DP=13888 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.842e+00,-3.842e+00 ././.:6578,11,0:2.241e-04,1.504e-04:6589:base_quality;t_lod:29,6,0:339,316,0:60,60,0:43,0:-3.342e+00,-3.522e+00 MT 2716 . G . . . GT:DP:MIN_DP:TLOD ./.:7225:7126:-3.842e+00 ./.:6705:6705:-3.777e+00 -MT 2717 . A C, . base_quality;t_lod CONTQ=93.00;DP=13884 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.842e+00,-3.842e+00 ././.:6546,19,0:1.923e-04,1.510e-04:6565:base_quality;t_lod:28,7,0:339,405,0:60,60,0:19,0:0.010,0.010,2.894e-03:1.500e-04,5.938e-04,0.999:-3.418e+00,-3.520e+00 -MT 2718 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=13879 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0,0:0.00,0.00,0.00:7225:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.842e+00,-3.842e+00,-3.842e+00 ./././.:6563,7,4,0:1.808e-04,1.780e-04,1.510e-04:6574:base_quality;t_lod:24,14,13,0:339,333,314,0:60,60,60,0:22,26,0:0.010,0.010,1.065e-03:1.591e-04,2.040e-04,1.000:-3.267e+00,-3.269e+00,-3.344e+00 +MT 2717 . A C, . base_quality;t_lod CONTQ=93.00;DP=13884 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.842e+00,-3.842e+00 ././.:6546,19,0:1.923e-04,1.510e-04:6565:base_quality;t_lod:28,7,0:339,405,0:60,60,0:19,0:-3.418e+00,-3.520e+00 +MT 2718 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=13879 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0,0:0.00,0.00,0.00:7225:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.842e+00,-3.842e+00,-3.842e+00 ./././.:6563,7,4,0:1.808e-04,1.780e-04,1.510e-04:6574:base_quality;t_lod:24,14,13,0:339,333,314,0:60,60,60,0:22,26,0:-3.267e+00,-3.269e+00,-3.344e+00 MT 2719 . G . . . GT:DP:MIN_DP:TLOD ./.:7225:7126:-3.842e+00 ./.:6661:6661:-3.645e+00 -MT 2720 . A C, . base_quality;t_lod CONTQ=93.00;DP=13867 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.842e+00,-3.842e+00 ././.:6656,2,0:1.496e-04,1.494e-04:6658:base_quality;t_lod:28,7,0:339,421,0:60,60,0:10,0:0.010,0.010,3.004e-04:1.158e-04,9.453e-05,1.000:-3.524e+00,-3.525e+00 +MT 2720 . A C, . base_quality;t_lod CONTQ=93.00;DP=13867 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.842e+00,-3.842e+00 ././.:6656,2,0:1.496e-04,1.494e-04:6658:base_quality;t_lod:28,7,0:339,421,0:60,60,0:10,0:-3.524e+00,-3.525e+00 MT 2721 . G . . END=2722 GT:DP:MIN_DP:TLOD ./.:7217:7213:-3.464e+00 ./.:6663:6619:-3.818e+00 MT 2723 . A . . END=2726 GT:DP:MIN_DP:TLOD ./.:7175:7126:-3.792e+00 ./.:6663:6619:-3.818e+00 -MT 2727 . C A, . t_lod CONTQ=93.00;DP=13821 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6602,2,0:1.624e-04,1.505e-04:6604:t_lod:28,22,0:339,407,0:60,60,0:12,0:0.010,0.00,3.028e-04:5.044e-05,3.235e-04,1.000:-3.489e+00,-3.521e+00 -MT 2728 . C A, . base_quality;t_lod CONTQ=93.00;DP=13820 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6508,7,0:1.798e-04,1.520e-04:6515:base_quality;t_lod:28,12,0:340,353,0:60,60,0:50,0:0.010,0.010,1.074e-03:1.549e-04,2.135e-04,1.000:-3.441e+00,-3.517e+00 +MT 2727 . C A, . t_lod CONTQ=93.00;DP=13821 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6602,2,0:1.624e-04,1.505e-04:6604:t_lod:28,22,0:339,407,0:60,60,0:12,0:-3.489e+00,-3.521e+00 +MT 2728 . C A, . base_quality;t_lod CONTQ=93.00;DP=13820 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6508,7,0:1.798e-04,1.520e-04:6515:base_quality;t_lod:28,12,0:340,353,0:60,60,0:50,0:-3.441e+00,-3.517e+00 MT 2729 . T . . . GT:DP:MIN_DP:TLOD ./.:7175:7126:-3.792e+00 ./.:6603:6603:-3.805e+00 -MT 2730 . A C, . base_quality;t_lod CONTQ=93.00;DP=13802 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6495,19,0:1.943e-04,1.525e-04:6514:base_quality;t_lod:29,8,0:340,346,0:60,60,0:24,0:0.010,0.010,2.917e-03:0.100,5.579e-05,0.900:-3.405e+00,-3.516e+00 +MT 2730 . A C, . base_quality;t_lod CONTQ=93.00;DP=13802 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6495,19,0:1.943e-04,1.525e-04:6514:base_quality;t_lod:29,8,0:340,346,0:60,60,0:24,0:-3.405e+00,-3.516e+00 MT 2731 . T . . END=2733 GT:DP:MIN_DP:TLOD ./.:7175:7126:-3.792e+00 ./.:6612:6598:-3.780e+00 MT 2734 . A . . . GT:DP:MIN_DP:TLOD ./.:7153:7153:-2.962e+00 ./.:6585:6585:-3.456e+00 MT 2735 . G . . . GT:DP:MIN_DP:TLOD ./.:7211:7133:-3.838e+00 ./.:6599:6599:-3.815e+00 -MT 2736 . C A, . base_quality;t_lod CONTQ=93.00;DP=13794 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7211,0,0:0.00,0.00:7211:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.838e+00,-3.838e+00 ././.:6478,5,0:1.877e-04,1.528e-04:6483:base_quality;t_lod:28,12,0:340,395,0:60,60,0:9,0:0.010,0.010,7.712e-04:1.103e-04,1.746e-04,1.000:-3.419e+00,-3.515e+00 -MT 2737 . T A, . base_quality;t_lod CONTQ=93.00;DP=13786 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7211,0,0:0.00,0.00:7211:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.838e+00,-3.838e+00 ././.:6454,5,0:1.547e-04,1.532e-04:6459:base_quality;t_lod:29,11,0:340,271,0:60,60,0:24,0:0.010,0.010,7.741e-04:1.110e-04,1.753e-04,1.000:-3.509e+00,-3.514e+00 +MT 2736 . C A, . base_quality;t_lod CONTQ=93.00;DP=13794 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7211,0,0:0.00,0.00:7211:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.838e+00,-3.838e+00 ././.:6478,5,0:1.877e-04,1.528e-04:6483:base_quality;t_lod:28,12,0:340,395,0:60,60,0:9,0:-3.419e+00,-3.515e+00 +MT 2737 . T A, . base_quality;t_lod CONTQ=93.00;DP=13786 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7211,0,0:0.00,0.00:7211:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.838e+00,-3.838e+00 ././.:6454,5,0:1.547e-04,1.532e-04:6459:base_quality;t_lod:29,11,0:340,271,0:60,60,0:24,0:-3.509e+00,-3.514e+00 MT 2738 . T . . END=2742 GT:DP:MIN_DP:TLOD ./.:7211:7133:-3.838e+00 ./.:7189:7170:-3.837e+00 MT 2743 . T . . . GT:DP:MIN_DP:TLOD ./.:7211:7133:-3.838e+00 ./.:7203:7203:-3.373e+00 MT 2744 . T . . END=2757 GT:DP:MIN_DP:TLOD ./.:7211:7133:-3.838e+00 ./.:7195:7077:-3.849e+00 @@ -1917,57 +1913,57 @@ MT 3052 . A . . . GT:DP:MIN_DP:TLOD ./.:7160:7160:-3.060e+00 ./.:7195: MT 3053 . A . . END=3057 GT:DP:MIN_DP:TLOD ./.:7154:7068:-3.822e+00 ./.:7190:7127:-3.748e+00 MT 3058 . T . . . GT:DP:MIN_DP:TLOD ./.:7154:7068:-3.822e+00 ./.:7218:7218:-3.327e+00 MT 3059 . A . . . GT:DP:MIN_DP:TLOD ./.:7154:7068:-3.822e+00 ./.:7209:7209:-3.703e+00 -MT 3060 . C A, . base_quality;t_lod CONTQ=93.00;DP=13588 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7154,0,0:0.00,0.00:7154:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.822e+00,-3.822e+00 ././.:6349,5,0:1.653e-04,1.561e-04:6354:base_quality;t_lod:25,14,0:338,337,0:60,60,0:28,0:0.010,0.010,7.869e-04:7.493e-05,4.296e-04,0.999:-3.481e+00,-3.506e+00 +MT 3060 . C A, . base_quality;t_lod CONTQ=93.00;DP=13588 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7154,0,0:0.00,0.00:7154:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.822e+00,-3.822e+00 ././.:6349,5,0:1.653e-04,1.561e-04:6354:base_quality;t_lod:25,14,0:338,337,0:60,60,0:28,0:-3.481e+00,-3.506e+00 MT 3061 . G . . END=3062 GT:DP:MIN_DP:TLOD ./.:7154:7068:-3.822e+00 ./.:6510:6457:-3.810e+00 MT 3063 . G . . . GT:DP:MIN_DP:TLOD ./.:7177:7177:-3.471e+00 ./.:6510:6457:-3.810e+00 -MT 3064 . A C, . base_quality;t_lod CONTQ=93.00;DP=13010 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6348,31,0:1.648e-04,1.557e-04:6379:base_quality;t_lod:28,7,0:343,365,0:60,60,0:23,0:0.010,0.010,4.860e-03:7.529e-04,1.950e-04,0.999:-3.482e+00,-3.507e+00 ./.:6510,0,0:0.00,0.00:6510:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 +MT 3064 . A C, . base_quality;t_lod CONTQ=93.00;DP=13010 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6348,31,0:1.648e-04,1.557e-04:6379:base_quality;t_lod:28,7,0:343,365,0:60,60,0:23,0:-3.482e+00,-3.507e+00 ./.:6510,0,0:0.00,0.00:6510:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 MT 3065 . T . . END=3074 GT:DP:MIN_DP:TLOD ./.:6474:6456:-3.809e+00 ./.:6510:6457:-3.810e+00 -MT 3075 . G T, . base_quality;t_lod CONTQ=93.00;DP=13037 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6395,3,0:1.687e-04,1.548e-04:6398:base_quality;t_lod:28,13,0:343,375,0:60,60,0:37,0:0.010,0.010,4.689e-04:8.489e-05,1.703e-04,1.000:-3.472e+00,-3.509e+00 ./.:6510,0,0:0.00,0.00:6510:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 +MT 3075 . G T, . base_quality;t_lod CONTQ=93.00;DP=13037 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6395,3,0:1.687e-04,1.548e-04:6398:base_quality;t_lod:28,13,0:343,375,0:60,60,0:37,0:-3.472e+00,-3.509e+00 ./.:6510,0,0:0.00,0.00:6510:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 MT 3076 . A . . END=3077 GT:DP:MIN_DP:TLOD ./.:6445:6434:-3.730e+00 ./.:6510:6457:-3.810e+00 MT 3078 . C . . . GT:DP:MIN_DP:TLOD ./.:6458:6458:-3.485e+00 ./.:6511:6500:-3.239e+00 MT 3079 . G . . . GT:DP:MIN_DP:TLOD ./.:6443:6417:-3.806e+00 ./.:6511:6500:-3.239e+00 -MT 3080 . G T, . base_quality;t_lod CONTQ=93.00;DP=12997 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6443,0,0:0.00,0.00:6443:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.806e+00,-3.806e+00 ././.:6393,8,0:2.402e-04,1.548e-04:6401:base_quality;t_lod:28,13,0:338,362,0:60,60,0:14,0:0.010,0.010,1.250e-03:4.212e-04,1.097e-04,0.999:-3.313e+00,-3.509e+00 +MT 3080 . G T, . base_quality;t_lod CONTQ=93.00;DP=12997 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6443,0,0:0.00,0.00:6443:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.806e+00,-3.806e+00 ././.:6393,8,0:2.402e-04,1.548e-04:6401:base_quality;t_lod:28,13,0:338,362,0:60,60,0:14,0:-3.313e+00,-3.509e+00 MT 3081 . A . . END=3083 GT:DP:MIN_DP:TLOD ./.:6443:6417:-3.806e+00 ./.:6516:6492:-3.810e+00 -MT 3084 . A C, . base_quality;t_lod CONTQ=93.00;DP=13122 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6398,16,0:1.593e-04,1.546e-04:6414:base_quality;t_lod:29,8,0:343,315,0:60,60,0:23,0:0.010,0.010,2.495e-03:2.074e-04,3.710e-04,0.999:-3.497e+00,-3.510e+00 ./.:6528,0,0:0.00,0.00:6528:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.370e+00,-3.370e+00 -MT 3085 . A T, . base_quality;t_lod CONTQ=93.00;DP=13108 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6374,3,0:1.593e-04,1.549e-04:6377:base_quality;t_lod:29,11,0:343,387,0:60,60,0:55,0:0.010,0.00,4.704e-04:5.084e-05,7.003e-04,0.999:-3.497e+00,-3.509e+00 ./.:6525,0,0:0.00,0.00:6525:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 +MT 3084 . A C, . base_quality;t_lod CONTQ=93.00;DP=13122 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6398,16,0:1.593e-04,1.546e-04:6414:base_quality;t_lod:29,8,0:343,315,0:60,60,0:23,0:-3.497e+00,-3.510e+00 ./.:6528,0,0:0.00,0.00:6528:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.370e+00,-3.370e+00 +MT 3085 . A T, . base_quality;t_lod CONTQ=93.00;DP=13108 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6374,3,0:1.593e-04,1.549e-04:6377:base_quality;t_lod:29,11,0:343,387,0:60,60,0:55,0:-3.497e+00,-3.509e+00 ./.:6525,0,0:0.00,0.00:6525:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 MT 3086 . T . . END=3087 GT:DP:MIN_DP:TLOD ./.:6434:6425:-3.708e+00 ./.:6525:6516:-3.807e+00 -MT 3088 . C A, . base_quality;t_lod CONTQ=93.00;DP=13162 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6401,5,0:1.841e-04,1.547e-04:6406:base_quality;t_lod:29,14,0:343,324,0:60,60,0:19,0:0.010,0.010,7.805e-04:1.113e-04,1.792e-04,1.000:-3.435e+00,-3.510e+00 ././.:6386,5,0:2.065e-04,1.549e-04:6391:t_lod:28,24,0:338,383,0:60,60,0:14,0:0.010,0.010,7.824e-04:5.904e-04,6.581e-05,0.999:-3.383e+00,-3.509e+00 +MT 3088 . C A, . base_quality;t_lod CONTQ=93.00;DP=13162 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6401,5,0:1.841e-04,1.547e-04:6406:base_quality;t_lod:29,14,0:343,324,0:60,60,0:19,0:-3.435e+00,-3.510e+00 ././.:6386,5,0:2.065e-04,1.549e-04:6391:t_lod:28,24,0:338,383,0:60,60,0:14,0:-3.383e+00,-3.509e+00 MT 3089 . A . . END=3092 GT:DP:MIN_DP:TLOD ./.:6414:6397:-3.805e+00 ./.:6488:6470:-3.807e+00 -MT 3093 . C A, . base_quality;t_lod CONTQ=93.00;DP=12974 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6414,0,0:0.00,0.00:6414:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:6391,3,0:1.835e-04,1.552e-04:6394:base_quality;t_lod:24,13,0:339,362,0:60,60,0:41,0:0.010,0.010,4.692e-04:8.313e-05,1.757e-04,1.000:-3.432e+00,-3.508e+00 -MT 3094 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13035 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6384,4,5,0:1.556e-04,1.642e-04,1.551e-04:6393:base_quality;t_lod:25,14,13,0:344,415,473,0:60,60,60,0:33,27,0:0.010,0.010,7.826e-04:1.092e-04,1.854e-04,1.000:-3.331e+00,-3.308e+00,-3.332e+00 ./.:6466,0,0,0:0.00,0.00,0.00:6466:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00,-3.792e+00 +MT 3093 . C A, . base_quality;t_lod CONTQ=93.00;DP=12974 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6414,0,0:0.00,0.00:6414:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:6391,3,0:1.835e-04,1.552e-04:6394:base_quality;t_lod:24,13,0:339,362,0:60,60,0:41,0:-3.432e+00,-3.508e+00 +MT 3094 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13035 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6384,4,5,0:1.556e-04,1.642e-04,1.551e-04:6393:base_quality;t_lod:25,14,13,0:344,415,473,0:60,60,60,0:33,27,0:-3.331e+00,-3.308e+00,-3.332e+00 ./.:6466,0,0,0:0.00,0.00,0.00:6466:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.792e+00,-3.792e+00,-3.792e+00 MT 3095 . G . . . GT:DP:MIN_DP:TLOD ./.:6445:6402:-3.804e+00 ./.:6466:6457:-3.792e+00 -MT 3096 . T C, . base_quality;t_lod CONTQ=93.00;DP=12969 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 ././.:6321,15,0:3.137e-04,1.561e-04:6336:base_quality;t_lod:28,7,0:339,353,0:60,60,0:20,0:0.010,0.010,2.367e-03:1.227e-03,1.126e-04,0.999:-3.160e+00,-3.505e+00 +MT 3096 . T C, . base_quality;t_lod CONTQ=93.00;DP=12969 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 ././.:6321,15,0:3.137e-04,1.561e-04:6336:base_quality;t_lod:28,7,0:339,353,0:60,60,0:20,0:-3.160e+00,-3.505e+00 MT 3097 . T . . END=3103 GT:DP:MIN_DP:TLOD ./.:6445:6402:-3.804e+00 ./.:6508:6499:-3.788e+00 -MT 3104 . TA T, . t_lod CONTQ=93.00;DP=12952 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 ././.:6359,18,0:2.321e-04,1.555e-04:6377:t_lod:29,28,0:339,467,0:60,60,0:31,0:0.010,0.010,2.823e-03:2.961e-04,2.424e-04,0.999:-3.336e+00,-3.507e+00 -MT 3105 . AC A, . t_lod CONTQ=93.00;DP=12935 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 ././.:6372,3,0:1.838e-04,1.547e-04:6375:t_lod:29,28,0:339,308,0:60,60,0:12,0:0.010,0.010,4.706e-04:8.371e-05,1.749e-04,1.000:-3.255e+00,-3.333e+00 -MT 3106 . C *, . t_lod DP=12935 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 ././.:6372,0,0:1.547e-04,1.547e-04:6375:t_lod:29,0,0:339,0,0:60,0,0:0,0:0.010,0.010,4.706e-04:8.371e-05,1.749e-04,1.000:-3.333e+00,-3.333e+00 +MT 3104 . TA T, . t_lod CONTQ=93.00;DP=12952 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 ././.:6359,18,0:2.321e-04,1.555e-04:6377:t_lod:29,28,0:339,467,0:60,60,0:31,0:-3.336e+00,-3.507e+00 +MT 3105 . AC A, . t_lod CONTQ=93.00;DP=12935 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 ././.:6372,3,0:1.838e-04,1.547e-04:6375:t_lod:29,28,0:339,308,0:60,60,0:12,0:-3.255e+00,-3.333e+00 +MT 3106 . C *, . t_lod DP=12935 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6445,0,0:0.00,0.00:6445:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 ././.:6372,0,0:1.547e-04,1.547e-04:6375:t_lod:29,0,0:339,0,0:60,0,0:0,0:-3.333e+00,-3.333e+00 MT 3107 . N . . . GT:DP:MIN_DP:TLOD ./.:6478:6478:13519.32 ./.:6523:6523:13616.42 MT 3108 . T . . END=3114 GT:DP:MIN_DP:TLOD ./.:6398:6325:-3.807e+00 ./.:6468:6456:-3.801e+00 MT 3115 . T . . . GT:DP:MIN_DP:TLOD ./.:6398:6325:-3.807e+00 ./.:6421:6421:-3.468e+00 MT 3116 . C . . END=3117 GT:DP:MIN_DP:TLOD ./.:6398:6325:-3.807e+00 ./.:6477:6455:-3.796e+00 -MT 3118 . T A, . base_quality;t_lod CONTQ=93.00;DP=13018 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6468,3,0:1.879e-04,1.537e-04:6471:base_quality;t_lod:28,12,0:345,296,0:60,60,0:3,0:0.010,0.010,4.636e-04:1.932e-04,7.700e-05,1.000:-3.419e+00,-3.513e+00 ./.:6477,0,0:0.00,0.00:6477:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 +MT 3118 . T A, . base_quality;t_lod CONTQ=93.00;DP=13018 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6468,3,0:1.879e-04,1.537e-04:6471:base_quality;t_lod:28,12,0:345,296,0:60,60,0:3,0:-3.419e+00,-3.513e+00 ./.:6477,0,0:0.00,0.00:6477:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 MT 3119 . C . . . GT:DP:MIN_DP:TLOD ./.:6422:6389:-3.793e+00 ./.:6477:6455:-3.796e+00 -MT 3120 . C A, . base_quality;t_lod CONTQ=93.00;DP=12928 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6422,0,0:0.00,0.00:6422:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.793e+00,-3.793e+00 ././.:6447,1,0:1.543e-04,1.542e-04:6448:base_quality;t_lod:28,2,0:338,324,0:60,60,0:4,0:0.010,0.00,1.551e-04:5.024e-05,1.322e-04,1.000:-3.511e+00,-3.511e+00 +MT 3120 . C A, . base_quality;t_lod CONTQ=93.00;DP=12928 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6422,0,0:0.00,0.00:6422:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.793e+00,-3.793e+00 ././.:6447,1,0:1.543e-04,1.542e-04:6448:base_quality;t_lod:28,2,0:338,324,0:60,60,0:4,0:-3.511e+00,-3.511e+00 MT 3121 . C . . END=3123 GT:DP:MIN_DP:TLOD ./.:6422:6389:-3.793e+00 ./.:6456:6423:-3.807e+00 -MT 3124 . T TCCGAAAGGACAAGAGA, . base_quality;t_lod CONTQ=93.00;DP=12977 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6330,7,0:1.561e-04,1.554e-04:6337:base_quality;t_lod:29,2,0:345,400,0:60,60,0:-1,0:0.010,0.010,1.105e-03:2.258e-03,6.225e-05,0.998:-3.506e+00,-3.508e+00 ./.:6456,0,0:0.00,0.00:6456:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 +MT 3124 . T TCCGAAAGGACAAGAGA, . base_quality;t_lod CONTQ=93.00;DP=12977 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6330,7,0:1.561e-04,1.554e-04:6337:base_quality;t_lod:29,2,0:345,400,0:60,60,0:-1,0:-3.506e+00,-3.508e+00 ./.:6456,0,0:0.00,0.00:6456:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 MT 3125 . A . . . GT:DP:MIN_DP:TLOD ./.:6424:6424:-3.777e+00 ./.:6456:6423:-3.807e+00 -MT 3126 . C T,A, . base_quality;contamination;mapping_quality;t_lod CONTQ=93.00;DP=13079 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6367,6,0,0:4.484e-04,1.555e-04,1.555e-04:6373:t_lod:25,28,0,0:345,287,0,0:60,60,0,0:53,0,0:0.010,0.010,9.415e-04:3.614e-04,9.384e-05,1.000:-2.903e+00,-3.507e+00,-3.507e+00 ././.:6429,0,0,0:1.547e-04,1.547e-04,1.547e-04:6429:base_quality;contamination;mapping_quality;t_lod:24,0,0,0:338,0,0,0:60,0,0,0:0,0,0:0.00,0.00,0.00:5.042e-05,4.769e-05,1.000:-3.510e+00,-3.510e+00,-3.510e+00 +MT 3126 . C T,A, . base_quality;contamination;mapping_quality;t_lod CONTQ=93.00;DP=13079 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6367,6,0,0:4.484e-04,1.555e-04,1.555e-04:6373:t_lod:25,28,0,0:345,287,0,0:60,60,0,0:53,0,0:-2.903e+00,-3.507e+00,-3.507e+00 ././.:6429,0,0,0:1.547e-04,1.547e-04,1.547e-04:6429:base_quality;contamination;mapping_quality;t_lod:24,0,0,0:338,0,0,0:60,0,0,0:0,0,0:-3.510e+00,-3.510e+00,-3.510e+00 MT 3127 . G . . . GT:DP:MIN_DP:TLOD ./.:6405:6405:-3.772e+00 ./.:6481:6457:-3.788e+00 MT 3128 . A . . . GT:DP:MIN_DP:TLOD ./.:6436:6436:-3.344e+00 ./.:6481:6457:-3.788e+00 MT 3129 . A . . . GT:DP:MIN_DP:TLOD ./.:6426:6401:-3.791e+00 ./.:6481:6457:-3.788e+00 -MT 3130 . A T, . base_quality;t_lod CONTQ=93.00;DP=12924 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6426,0,0:0.00,0.00:6426:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.791e+00,-3.791e+00 ././.:6333,5,0:1.925e-04,1.561e-04:6338:base_quality;t_lod:29,12,0:338,403,0:60,60,0:30,0:0.010,0.010,7.889e-04:5.707e-04,6.746e-05,0.999:-3.408e+00,-3.506e+00 -MT 3131 . G T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12922 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6426,0,0:0.00,0.00:6426:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.791e+00,-3.791e+00 ././.:6440,0,0:1.545e-04,1.545e-04:6440:base_quality;contamination;mapping_quality;t_lod:28,0,0:338,0,0:60,0,0:0,0:0.00,0.00,0.00:5.007e-05,4.785e-05,1.000:-3.510e+00,-3.510e+00 +MT 3130 . A T, . base_quality;t_lod CONTQ=93.00;DP=12924 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6426,0,0:0.00,0.00:6426:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.791e+00,-3.791e+00 ././.:6333,5,0:1.925e-04,1.561e-04:6338:base_quality;t_lod:29,12,0:338,403,0:60,60,0:30,0:-3.408e+00,-3.506e+00 +MT 3131 . G T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12922 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6426,0,0:0.00,0.00:6426:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.791e+00,-3.791e+00 ././.:6440,0,0:1.545e-04,1.545e-04:6440:base_quality;contamination;mapping_quality;t_lod:28,0,0:338,0,0:60,0,0:0,0:-3.510e+00,-3.510e+00 MT 3132 . G . . END=3134 GT:DP:MIN_DP:TLOD ./.:6426:6401:-3.791e+00 ./.:6475:6450:-3.807e+00 -MT 3135 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13013 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6332,0,6,0:1.561e-04,2.016e-04,1.561e-04:6338:base_quality;t_lod:29,0,16,0:344,0,325,0:60,0,60,0:0,63,0:0.010,0.010,9.467e-04:1.745e-04,1.556e-04,1.000:-3.505e+00,-3.383e+00,-3.505e+00 ././.:6319,6,0,0:1.657e-04,1.564e-04,1.564e-04:6325:base_quality;t_lod:29,9,0,0:338,327,0,0:60,60,0,0:27,0,0:0.010,0.010,9.486e-04:1.097e-03,6.576e-05,0.999:-3.480e+00,-3.505e+00,-3.505e+00 +MT 3135 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13013 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6332,0,6,0:1.561e-04,2.016e-04,1.561e-04:6338:base_quality;t_lod:29,0,16,0:344,0,325,0:60,0,60,0:0,63,0:-3.505e+00,-3.383e+00,-3.505e+00 ././.:6319,6,0,0:1.657e-04,1.564e-04,1.564e-04:6325:base_quality;t_lod:29,9,0,0:338,327,0,0:60,60,0,0:27,0,0:-3.480e+00,-3.505e+00,-3.505e+00 MT 3136 . A . . END=3137 GT:DP:MIN_DP:TLOD ./.:6397:6396:-3.760e+00 ./.:6479:6472:-3.793e+00 -MT 3138 . A C, . base_quality;t_lod CONTQ=93.00;DP=12989 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6326,5,0:1.630e-04,1.565e-04:6331:base_quality;t_lod:28,6,0:345,606,0:60,60,0:29,0:0.010,0.010,7.898e-04:5.681e-04,6.769e-05,0.999:-3.487e+00,-3.505e+00 ././.:6313,9,0:1.664e-04,1.567e-04:6322:base_quality;t_lod:28,6,0:338,397,0:60,60,0:42,0:0.010,0.010,1.424e-03:2.696e-04,1.434e-04,1.000:-3.478e+00,-3.504e+00 -MT 3139 . G T, . base_quality;t_lod CONTQ=93.00;DP=12886 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6392,0,0:0.00,0.00:6392:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6310,4,0:2.413e-04,1.567e-04:6314:base_quality;t_lod:28,19,0:338,298,0:60,60,0:23,0:0.010,0.010,6.335e-04:7.416e-05,2.870e-04,1.000:-3.303e+00,-3.504e+00 +MT 3138 . A C, . base_quality;t_lod CONTQ=93.00;DP=12989 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6326,5,0:1.630e-04,1.565e-04:6331:base_quality;t_lod:28,6,0:345,606,0:60,60,0:29,0:-3.487e+00,-3.505e+00 ././.:6313,9,0:1.664e-04,1.567e-04:6322:base_quality;t_lod:28,6,0:338,397,0:60,60,0:42,0:-3.478e+00,-3.504e+00 +MT 3139 . G T, . base_quality;t_lod CONTQ=93.00;DP=12886 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6392,0,0:0.00,0.00:6392:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6310,4,0:2.413e-04,1.567e-04:6314:base_quality;t_lod:28,19,0:338,298,0:60,60,0:23,0:-3.303e+00,-3.504e+00 MT 3140 . A . . . GT:DP:MIN_DP:TLOD ./.:6392:6390:-3.792e+00 ./.:6478:6468:-3.799e+00 -MT 3141 . A C, . base_quality;t_lod CONTQ=93.00;DP=12965 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6314,16,0:1.729e-04,1.566e-04:6330:base_quality;t_lod:29,8,0:344,350,0:60,60,0:30,0:0.010,0.010,2.528e-03:2.963e-04,2.529e-04,0.999:-3.462e+00,-3.504e+00 ./.:6478,0,0:0.00,0.00:6478:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.799e+00,-3.799e+00 +MT 3141 . A C, . base_quality;t_lod CONTQ=93.00;DP=12965 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6314,16,0:1.729e-04,1.566e-04:6330:base_quality;t_lod:29,8,0:344,350,0:60,60,0:30,0:-3.462e+00,-3.504e+00 ./.:6478,0,0:0.00,0.00:6478:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.799e+00,-3.799e+00 MT 3142 . A . . END=3145 GT:DP:MIN_DP:TLOD ./.:6393:6379:-3.791e+00 ./.:6478:6468:-3.799e+00 -MT 3146 . G T, . base_quality;t_lod CONTQ=93.00;DP=12966 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6317,10,0:1.756e-04,1.567e-04:6327:base_quality;t_lod:29,13,0:344,281,0:60,60,0:21,0:0.010,0.010,1.581e-03:7.707e-04,9.049e-05,0.999:-3.455e+00,-3.504e+00 ././.:6292,9,0:2.127e-04,1.573e-04:6301:base_quality;t_lod:28,15,0:338,299,0:60,60,0:26,0:0.010,0.010,1.428e-03:1.543e-04,2.452e-04,1.000:-3.369e+00,-3.502e+00 +MT 3146 . G T, . base_quality;t_lod CONTQ=93.00;DP=12966 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6317,10,0:1.756e-04,1.567e-04:6327:base_quality;t_lod:29,13,0:344,281,0:60,60,0:21,0:-3.455e+00,-3.504e+00 ././.:6292,9,0:2.127e-04,1.573e-04:6301:base_quality;t_lod:28,15,0:338,299,0:60,60,0:26,0:-3.369e+00,-3.502e+00 MT 3147 . G . . END=3153 GT:DP:MIN_DP:TLOD ./.:7107:6942:-3.808e+00 ./.:6432:6414:-3.792e+00 -MT 3154 . T G, . base_quality;t_lod CONTQ=93.00;DP=13409 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.808e+00,-3.808e+00 ././.:6272,18,0:1.598e-04,1.577e-04:6290:base_quality;t_lod:28,7,0:338,399,0:60,60,0:36,0:0.010,0.010,2.862e-03:2.632e-04,2.723e-04,0.999:-3.495e+00,-3.501e+00 +MT 3154 . T G, . base_quality;t_lod CONTQ=93.00;DP=13409 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7107,0,0:0.00,0.00:7107:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.808e+00,-3.808e+00 ././.:6272,18,0:1.598e-04,1.577e-04:6290:base_quality;t_lod:28,7,0:338,399,0:60,60,0:36,0:-3.495e+00,-3.501e+00 MT 3155 . C . . END=3159 GT:DP:MIN_DP:TLOD ./.:7107:6942:-3.808e+00 ./.:7156:7123:-3.823e+00 MT 3160 . A . . . GT:DP:MIN_DP:TLOD ./.:7107:6942:-3.808e+00 ./.:7078:7078:-2.872e+00 MT 3161 . G . . . GT:DP:MIN_DP:TLOD ./.:7107:6942:-3.808e+00 ./.:7085:6938:-3.821e+00 @@ -2881,14 +2877,14 @@ MT 4707 . C . . END=4708 GT:DP:MIN_DP:TLOD ./.:92:91:-1.967e+00 ./.:65 MT 4709 . C . . . GT:DP:MIN_DP:TLOD ./.:92:91:-1.967e+00 ./.:618:618:-2.464e+00 MT 4710 . T . . . GT:DP:MIN_DP:TLOD ./.:92:91:-1.967e+00 ./.:583:579:-2.771e+00 MT 4711 . C . . END=4712 GT:DP:MIN_DP:TLOD ./.:93:92:-1.456e+00 ./.:583:579:-2.771e+00 -MT 4713 . G A, . t_lod CONTQ=93.00;DP=623 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:42,2,0:0.064,0.021:44:t_lod:23,28,0:365,382,0:60,59,0:68,0:0|1:4713_G_A:4713:0.051,0.00,0.045:2.240e-03,0.345,0.653:4.65,-1.362e+00 ./.:583,0,0:0.00,0.00:583:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.771e+00,-2.771e+00 +MT 4713 . G A, . t_lod CONTQ=93.00;DP=623 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:42,2,0:0.064,0.021:44:t_lod:23,28,0:365,382,0:60,59,0:68,0:0|1:4713_G_A:4713:4.65,-1.362e+00 ./.:583,0,0:0.00,0.00:583:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.771e+00,-2.771e+00 MT 4714 . G . . . GT:DP:MIN_DP:TLOD ./.:44:44:-1.653e+00 ./.:583:583:-2.111e+00 MT 4715 . A . . . GT:DP:MIN_DP:TLOD ./.:44:44:-1.653e+00 ./.:600:600:-2.779e+00 MT 4716 . C . . . GT:DP:MIN_DP:TLOD ./.:44:44:-1.653e+00 ./.:588:588:-1.537e+00 MT 4717 . A . . . GT:DP:MIN_DP:TLOD ./.:44:44:-1.653e+00 ./.:599:599:-2.447e+00 MT 4718 . A . . . GT:DP:MIN_DP:TLOD ./.:44:44:-1.653e+00 ./.:600:600:-2.740e+00 MT 4719 . T . . . GT:DP:MIN_DP:TLOD ./.:44:44:-1.277e+00 ./.:601:601:-1.485e+00 -MT 4720 . G A, . t_lod CONTQ=93.00;DP=644 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:43,2,0:0.063,0.021:45:t_lod:28,28,0:365,382,0:60,59,0:61,0:0|1:4713_G_A:4713:0.040,0.00,0.044:2.428e-03,0.290,0.707:4.63,-1.370e+00 ./.:602,0,0:0.00,0.00:602:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.716e+00,-2.716e+00 +MT 4720 . G A, . t_lod CONTQ=93.00;DP=644 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:43,2,0:0.063,0.021:45:t_lod:28,28,0:365,382,0:60,59,0:61,0:0|1:4713_G_A:4713:4.63,-1.370e+00 ./.:602,0,0:0.00,0.00:602:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.716e+00,-2.716e+00 MT 4721 . A . . . GT:DP:MIN_DP:TLOD ./.:45:44:-1.662e+00 ./.:602:599:-2.716e+00 MT 4722 . A . . . GT:DP:MIN_DP:TLOD ./.:45:44:-1.662e+00 ./.:603:603:-2.266e+00 MT 4723 . C . . . GT:DP:MIN_DP:TLOD ./.:46:46:-1.431e+00 ./.:605:597:-2.778e+00 @@ -2897,7 +2893,7 @@ MT 4733 . T . . . GT:DP:MIN_DP:TLOD ./.:49:44:-1.707e+00 ./.:607:607:- MT 4734 . A . . END=4738 GT:DP:MIN_DP:TLOD ./.:49:44:-1.707e+00 ./.:608:595:-2.767e+00 MT 4739 . C . . END=4741 GT:DP:MIN_DP:TLOD ./.:49:44:-1.707e+00 ./.:609:608:-2.309e+00 MT 4742 . T . . END=4744 GT:DP:MIN_DP:TLOD ./.:49:44:-1.707e+00 ./.:642:639:-2.779e+00 -MT 4745 . A G, . PASS CONTQ=93.00;DP=693 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1,49,0:0.960,0.019:50:13,27,0:511,365,0:60,60,0:36,0:0.980,0.980,0.980:0.028,0.026,0.946:139.11,-1.406e+00 ./.:643,0,0:0.00,0.00:643:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.315e+00,-2.315e+00 +MT 4745 . A G, . PASS CONTQ=93.00;DP=693 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1,49,0:0.960,0.019:50:13,27,0:511,365,0:60,60,0:36,0:139.11,-1.406e+00 ./.:643,0,0:0.00,0.00:643:.,.,.:.,.,.:.,.,.:.,.:-2.315e+00,-2.315e+00 MT 4746 . T . . . GT:DP:MIN_DP:TLOD ./.:52:47:-1.998e+00 ./.:644:644:-2.660e+00 MT 4747 . A . . . GT:DP:MIN_DP:TLOD ./.:52:47:-1.998e+00 ./.:645:645:-2.189e+00 MT 4748 . C . . . GT:DP:MIN_DP:TLOD ./.:52:47:-1.998e+00 ./.:633:633:-2.792e+00 @@ -2907,28 +2903,28 @@ MT 4752 . T . . . GT:DP:MIN_DP:TLOD ./.:52:47:-1.998e+00 ./.:637:637:- MT 4753 . C . . END=4765 GT:DP:MIN_DP:TLOD ./.:52:47:-1.998e+00 ./.:635:629:-2.831e+00 MT 4766 . A . . END=4767 GT:DP:MIN_DP:TLOD ./.:180:139:-2.362e+00 ./.:635:629:-2.831e+00 MT 4768 . T . . . GT:DP:MIN_DP:TLOD ./.:180:139:-2.362e+00 ./.:793:793:-2.300e+00 -MT 4769 . A G,T, . PASS CONTQ=93.00;DP=1240 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:55,231,1,0:0.805,4.213e-03,2.674e-03:287:11,27,11,0:365,334,317,0:60,60,57,0:2,43,0:0.798,0.778,0.808:6.117e-03,0.280,0.714:643.99,-1.811e+00,-2.094e+00 ./././.:22,753,11,0:0.991,1.429e-03,1.246e-03:786:11,28,10,0:335,359,355,0:60,40,57,0:30,39,0:0.970,0.970,0.972:0.013,0.073,0.914:2232.86,-2.372e+00,-2.428e+00 +MT 4769 . A G,T, . PASS CONTQ=93.00;DP=1240 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:55,231,1,0:0.805,4.213e-03,2.674e-03:287:11,27,11,0:365,334,317,0:60,60,57,0:2,43,0:643.99,-1.811e+00,-2.094e+00 ./././.:22,753,11,0:0.991,1.429e-03,1.246e-03:786:11,28,10,0:335,359,355,0:60,40,57,0:30,39,0:2232.86,-2.372e+00,-2.428e+00 MT 4770 . G . . . GT:DP:MIN_DP:TLOD ./.:311:311:-2.502e+00 ./.:888:808:-2.967e+00 MT 4771 . C . . END=4772 GT:DP:MIN_DP:TLOD ./.:372:352:-2.437e+00 ./.:888:808:-2.967e+00 MT 4773 . A . . END=4774 GT:DP:MIN_DP:TLOD ./.:464:428:-2.717e+00 ./.:888:808:-2.967e+00 MT 4775 . A . . . GT:DP:MIN_DP:TLOD ./.:464:428:-2.717e+00 ./.:1027:1027:-3.009e+00 -MT 4776 . G T,A, . base_quality;t_lod CONTQ=93.00;DP=1815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:560,0,3,0:1.665e-03,4.594e-03,1.665e-03:563:t_lod:28,0,24,0:336,0,465,0:60,0,60,0:0,3,0:0.010,0.010,5.329e-03:6.458e-04,4.048e-03,0.995:-2.478e+00,-1.340e+00,-2.478e+00 ././.:1076,1,0,0:9.019e-04,8.981e-04,8.981e-04:1077:base_quality;t_lod:28,14,0,0:345,182,0,0:52,57,0,0:10,0,0:0.00,0.010,9.285e-04:6.458e-04,3.593e-04,0.999:-2.744e+00,-2.746e+00,-2.746e+00 +MT 4776 . G T,A, . base_quality;t_lod CONTQ=93.00;DP=1815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:560,0,3,0:1.665e-03,4.594e-03,1.665e-03:563:t_lod:28,0,24,0:336,0,465,0:60,0,60,0:0,3,0:-2.478e+00,-1.340e+00,-2.478e+00 ././.:1076,1,0,0:9.019e-04,8.981e-04,8.981e-04:1077:base_quality;t_lod:28,14,0,0:345,182,0,0:52,57,0,0:10,0,0:-2.744e+00,-2.746e+00,-2.746e+00 MT 4777 . C . . END=4778 GT:DP:MIN_DP:TLOD ./.:661:601:-2.853e+00 ./.:1132:1108:-3.052e+00 -MT 4779 . A G, . t_lod CONTQ=93.00;DP=1888 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:661,0,0:0.00,0.00:661:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.853e+00,-2.853e+00 ././.:1194,1,0:1.234e-03,8.091e-04:1195:t_lod:29,26,0:344,384,0:59,60,0:68,0:0.00,0.010,8.368e-04:5.719e-04,3.300e-04,0.999:-2.544e+00,-2.791e+00 +MT 4779 . A G, . t_lod CONTQ=93.00;DP=1888 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:661,0,0:0.00,0.00:661:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.853e+00,-2.853e+00 ././.:1194,1,0:1.234e-03,8.091e-04:1195:t_lod:29,26,0:344,384,0:59,60,0:68,0:-2.544e+00,-2.791e+00 MT 4780 . T . . . GT:DP:MIN_DP:TLOD ./.:661:601:-2.853e+00 ./.:1240:1240:-3.056e+00 -MT 4781 . A C, . base_quality;t_lod CONTQ=93.00;DP=2150 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:781,2,0:1.302e-03,1.220e-03:783:base_quality;t_lod:29,13,0:338,235,0:60,59,0:31,0:0.010,0.010,2.554e-03:5.334e-04,1.385e-03,0.998:-2.585e+00,-2.613e+00 ./.:1281,0,0:0.00,0.00:1281:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.668e+00,-2.668e+00 +MT 4781 . A C, . base_quality;t_lod CONTQ=93.00;DP=2150 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:781,2,0:1.302e-03,1.220e-03:783:base_quality;t_lod:29,13,0:338,235,0:60,59,0:31,0:-2.585e+00,-2.613e+00 ./.:1281,0,0:0.00,0.00:1281:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.668e+00,-2.668e+00 MT 4782 . A . . . GT:DP:MIN_DP:TLOD ./.:815:815:-2.901e+00 ./.:1324:1324:-3.040e+00 -MT 4783 . A C, . base_quality;t_lod CONTQ=93.00;DP=2324 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:857,7,0:1.158e-03,1.113e-03:864:base_quality;t_lod:28,9,0:335,327,0:60,60,0:9,0:0.010,0.010,8.102e-03:5.612e-04,5.219e-03,0.994:-2.636e+00,-2.653e+00 ./.:1366,0,0:0.00,0.00:1366:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.716e+00,-2.716e+00 +MT 4783 . A C, . base_quality;t_lod CONTQ=93.00;DP=2324 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:857,7,0:1.158e-03,1.113e-03:864:base_quality;t_lod:28,9,0:335,327,0:60,60,0:9,0:-2.636e+00,-2.653e+00 ./.:1366,0,0:0.00,0.00:1366:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.716e+00,-2.716e+00 MT 4784 . A . . . GT:DP:MIN_DP:TLOD ./.:901:901:-2.935e+00 ./.:1481:1397:-3.163e+00 -MT 4785 . C A, . t_lod CONTQ=93.00;DP=2442 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:951,3,0:2.157e-03,1.008e-03:954:t_lod:27,22,0:336,433,0:60,60,0:7,0:0.00,0.010,3.145e-03:1.977e-03,4.846e-04,0.998:-2.205e+00,-2.695e+00 ./.:1481,0,0:0.00,0.00:1481:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.163e+00,-3.163e+00 +MT 4785 . C A, . t_lod CONTQ=93.00;DP=2442 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:951,3,0:2.157e-03,1.008e-03:954:t_lod:27,22,0:336,433,0:60,60,0:7,0:-2.205e+00,-2.695e+00 ./.:1481,0,0:0.00,0.00:1481:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.163e+00,-3.163e+00 MT 4786 . T . . END=4788 GT:DP:MIN_DP:TLOD ./.:1228:1095:-2.998e+00 ./.:1481:1397:-3.163e+00 -MT 4789 . G T, . base_quality;t_lod CONTQ=93.00;DP=2808 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:1228,0,0:0.00,0.00:1228:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.998e+00,-2.998e+00 ././.:1624,2,0:6.055e-04,6.021e-04:1626:base_quality;t_lod:28,13,0:338,364,0:60,56,0:35,0:0.00,0.010,1.230e-03:8.160e-04,2.508e-04,0.999:-2.917e+00,-2.919e+00 +MT 4789 . G T, . base_quality;t_lod CONTQ=93.00;DP=2808 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:1228,0,0:0.00,0.00:1228:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.998e+00,-2.998e+00 ././.:1624,2,0:6.055e-04,6.021e-04:1626:base_quality;t_lod:28,13,0:338,364,0:60,56,0:35,0:-2.917e+00,-2.919e+00 MT 4790 . A . . END=4791 GT:DP:MIN_DP:TLOD ./.:1228:1095:-2.998e+00 ./.:1659:1641:-3.216e+00 MT 4792 . T . . . GT:DP:MIN_DP:TLOD ./.:1228:1095:-2.998e+00 ./.:1709:1709:-2.964e+00 MT 4793 . A . . END=4796 GT:DP:MIN_DP:TLOD ./.:1681:1370:-3.259e+00 ./.:1832:1748:-3.255e+00 MT 4797 . C . . . GT:DP:MIN_DP:TLOD ./.:1681:1370:-3.259e+00 ./.:1963:1963:-2.953e+00 MT 4798 . C . . END=4799 GT:DP:MIN_DP:TLOD ./.:1681:1370:-3.259e+00 ./.:1969:1958:-3.299e+00 -MT 4800 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=3532 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:1681,0,0:0.00,0.00:1681:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.259e+00,-3.259e+00 ././.:2066,0,0:4.744e-04,4.744e-04:2066:base_quality;contamination;mapping_quality;t_lod:28,0,0:336,0,0:60,0,0:0,0:0.00,0.00,0.00:1.212e-04,2.034e-04,1.000:-3.023e+00,-3.023e+00 +MT 4800 . T A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=3532 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:1681,0,0:0.00,0.00:1681:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.259e+00,-3.259e+00 ././.:2066,0,0:4.744e-04,4.744e-04:2066:base_quality;contamination;mapping_quality;t_lod:28,0,0:336,0,0:60,0,0:0,0:-3.023e+00,-3.023e+00 MT 4801 . T . . END=4803 GT:DP:MIN_DP:TLOD ./.:1681:1370:-3.259e+00 ./.:2281:2184:-3.369e+00 MT 4804 . A . . . GT:DP:MIN_DP:TLOD ./.:1949:1949:-2.551e+00 ./.:2281:2184:-3.369e+00 MT 4805 . C . . . GT:DP:MIN_DP:TLOD ./.:2008:2008:-3.297e+00 ./.:2281:2184:-3.369e+00 @@ -3841,47 +3837,47 @@ MT 6227 . T . . . GT:DP:MIN_DP:TLOD ./.:6536:6536:-3.424e+00 ./.:6397: MT 6228 . C . . . GT:DP:MIN_DP:TLOD ./.:6610:6610:-3.752e+00 ./.:6397:6121:-3.796e+00 MT 6229 . T . . . GT:DP:MIN_DP:TLOD ./.:6631:6631:-3.358e+00 ./.:6397:6121:-3.796e+00 MT 6230 . C . . . GT:DP:MIN_DP:TLOD ./.:6758:6709:-3.796e+00 ./.:6397:6121:-3.796e+00 -MT 6231 . C A, . t_lod CONTQ=93.00;DP=12907 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6758,0,0:0.00,0.00:6758:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 ././.:6120,3,0:2.207e-04,1.628e-04:6123:t_lod:28,28,0:342,341,0:60,60,0:26,0:0.010,0.010,4.900e-04:1.800e-04,8.668e-05,1.000:-3.353e+00,-3.488e+00 +MT 6231 . C A, . t_lod CONTQ=93.00;DP=12907 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6758,0,0:0.00,0.00:6758:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 ././.:6120,3,0:2.207e-04,1.628e-04:6123:t_lod:28,28,0:342,341,0:60,60,0:26,0:-3.353e+00,-3.488e+00 MT 6232 . T . . . GT:DP:MIN_DP:TLOD ./.:6758:6709:-3.796e+00 ./.:6263:6263:-3.693e+00 -MT 6233 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13013 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6748,0,0,0:0.00,0.00,0.00:6748:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-9.936e-01,-9.936e-01,-9.936e-01 ./././.:6003,112,16,0:5.447e-04,1.927e-04,1.645e-04:6131:base_quality;t_lod:28,8,12,0:341,380,347,0:60,60,60,0:33,46,0:0.020,0.010,0.018:1.739e-15,1.000,2.440e-11:-2.702e+00,-3.237e+00,-3.307e+00 +MT 6233 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13013 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6748,0,0,0:0.00,0.00,0.00:6748:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-9.936e-01,-9.936e-01,-9.936e-01 ./././.:6003,112,16,0:5.447e-04,1.927e-04,1.645e-04:6131:base_quality;t_lod:28,8,12,0:341,380,347,0:60,60,60,0:33,46,0:-2.702e+00,-3.237e+00,-3.307e+00 MT 6234 . C . . END=6235 GT:DP:MIN_DP:TLOD ./.:7225:6839:-3.828e+00 ./.:6373:6363:-3.789e+00 -MT 6236 . C A, . base_quality;t_lod CONTQ=93.00;DP=13228 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.828e+00,-3.828e+00 ././.:6298,4,0:1.617e-04,1.579e-04:6302:base_quality;t_lod:28,11,0:342,380,0:60,60,0:48,0:0.010,0.010,6.347e-04:1.174e-04,1.299e-04,1.000:-3.490e+00,-3.500e+00 +MT 6236 . C A, . base_quality;t_lod CONTQ=93.00;DP=13228 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.828e+00,-3.828e+00 ././.:6298,4,0:1.617e-04,1.579e-04:6302:base_quality;t_lod:28,11,0:342,380,0:60,60,0:48,0:-3.490e+00,-3.500e+00 MT 6237 . C . . END=6242 GT:DP:MIN_DP:TLOD ./.:7225:6839:-3.828e+00 ./.:6597:6522:-3.822e+00 -MT 6243 . G T, . base_quality;t_lod CONTQ=93.00;DP=13512 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.828e+00,-3.828e+00 ././.:6573,8,0:2.827e-04,1.517e-04:6581:base_quality;t_lod:25,18,0:342,353,0:60,60,0:33,0:0.010,0.010,1.216e-03:7.706e-04,8.388e-05,0.999:-3.231e+00,-3.518e+00 +MT 6243 . G T, . base_quality;t_lod CONTQ=93.00;DP=13512 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.828e+00,-3.828e+00 ././.:6573,8,0:2.827e-04,1.517e-04:6581:base_quality;t_lod:25,18,0:342,353,0:60,60,0:33,0:-3.231e+00,-3.518e+00 MT 6244 . C . . END=6249 GT:DP:MIN_DP:TLOD ./.:7225:6839:-3.828e+00 ./.:6740:6729:-3.808e+00 -MT 6250 . C A, . t_lod CONTQ=93.00;DP=13616 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.828e+00,-3.828e+00 ././.:6587,4,0:2.172e-04,1.501e-04:6591:t_lod:29,20,0:342,398,0:60,60,0:44,0:0.010,0.00,6.069e-04:4.661e-05,1.530e-03,0.998:-3.356e+00,-3.523e+00 -MT 6251 . T G, . base_quality;t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.828e+00,-3.828e+00 ././.:6575,10,0:1.613e-04,1.503e-04:6585:base_quality;t_lod:29,8,0:342,372,0:60,60,0:10,0:0.010,0.010,1.519e-03:8.582e-05,7.887e-04,0.999:-3.492e+00,-3.522e+00 -MT 6252 . A C, . base_quality;t_lod CONTQ=93.00;DP=14000 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.421e+00,-3.421e+00 ././.:6574,18,0:1.876e-04,1.503e-04:6592:base_quality;t_lod:29,9,0:342,346,0:60,60,0:15,0:0.010,0.010,2.731e-03:0.116,5.389e-05,0.884:-3.428e+00,-3.522e+00 +MT 6250 . C A, . t_lod CONTQ=93.00;DP=13616 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.828e+00,-3.828e+00 ././.:6587,4,0:2.172e-04,1.501e-04:6591:t_lod:29,20,0:342,398,0:60,60,0:44,0:-3.356e+00,-3.523e+00 +MT 6251 . T G, . base_quality;t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.828e+00,-3.828e+00 ././.:6575,10,0:1.613e-04,1.503e-04:6585:base_quality;t_lod:29,8,0:342,372,0:60,60,0:10,0:-3.492e+00,-3.522e+00 +MT 6252 . A C, . base_quality;t_lod CONTQ=93.00;DP=14000 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7225,0,0:0.00,0.00:7225:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.421e+00,-3.421e+00 ././.:6574,18,0:1.876e-04,1.503e-04:6592:base_quality;t_lod:29,9,0:342,346,0:60,60,0:15,0:-3.428e+00,-3.522e+00 MT 6253 . T . . END=6255 GT:DP:MIN_DP:TLOD ./.:7185:7143:-3.794e+00 ./.:6728:6713:-3.821e+00 -MT 6256 . T C, . base_quality;t_lod CONTQ=93.00;DP=13914 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7185,0,0:0.00,0.00:7185:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.794e+00,-3.794e+00 ././.:6571,10,0:1.941e-04,1.504e-04:6581:base_quality;t_lod:29,9,0:342,419,0:60,60,0:19,0:0.010,0.010,1.520e-03:1.903e-03,7.058e-05,0.998:-3.400e+00,-3.522e+00 +MT 6256 . T C, . base_quality;t_lod CONTQ=93.00;DP=13914 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7185,0,0:0.00,0.00:7185:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.794e+00,-3.794e+00 ././.:6571,10,0:1.941e-04,1.504e-04:6581:base_quality;t_lod:29,9,0:342,419,0:60,60,0:19,0:-3.400e+00,-3.522e+00 MT 6257 . G . . END=6259 GT:DP:MIN_DP:TLOD ./.:7185:7143:-3.794e+00 ./.:6720:6686:-3.806e+00 -MT 6260 . G T, . base_quality;t_lod CONTQ=93.00;DP=13909 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7185,0,0:0.00,0.00:7185:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.794e+00,-3.794e+00 ././.:6589,5,0:1.510e-04,1.505e-04:6594:base_quality;t_lod:28,6,0:342,419,0:60,60,0:25,0:0.010,0.010,7.583e-04:4.935e-04,6.659e-05,0.999:-3.520e+00,-3.521e+00 -MT 6261 . G A, . PASS CONTQ=93.00;DP=13883 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7120,0,0:0.00,0.00:7120:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.289e+00,-3.289e+00 ././.:52,6501,0:0.995,1.513e-04:6553:28,28,0:327,342,0:60,60,0:37,0:0.990,0.990,0.992:0.031,0.015,0.954:20220.84,-3.519e+00 +MT 6260 . G T, . base_quality;t_lod CONTQ=93.00;DP=13909 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7185,0,0:0.00,0.00:7185:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.794e+00,-3.794e+00 ././.:6589,5,0:1.510e-04,1.505e-04:6594:base_quality;t_lod:28,6,0:342,419,0:60,60,0:25,0:-3.520e+00,-3.521e+00 +MT 6261 . G A, . PASS CONTQ=93.00;DP=13883 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7120,0,0:0.00,0.00:7120:.,.,.:.,.,.:.,.,.:.,.:-3.289e+00,-3.289e+00 ././.:52,6501,0:0.995,1.513e-04:6553:28,28,0:327,342,0:60,60,0:37,0:20220.84,-3.519e+00 MT 6262 . C . . END=6263 GT:DP:MIN_DP:TLOD ./.:7108:7088:-3.847e+00 ./.:6662:6615:-3.823e+00 MT 6264 . G . . . GT:DP:MIN_DP:TLOD ./.:7056:7056:-3.360e+00 ./.:6662:6615:-3.823e+00 MT 6265 . G . . END=6266 GT:DP:MIN_DP:TLOD ./.:7144:7087:-3.834e+00 ./.:6662:6615:-3.823e+00 -MT 6267 . G T, . base_quality;t_lod CONTQ=93.00;DP=13809 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7144,0,0:0.00,0.00:7144:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.834e+00,-3.834e+00 ././.:6540,6,0:1.522e-04,1.516e-04:6546:base_quality;t_lod:28,12,0:342,449,0:60,60,0:43,0:0.00,0.010,9.166e-04:6.101e-03,4.765e-05,0.994:-3.517e+00,-3.518e+00 +MT 6267 . G T, . base_quality;t_lod CONTQ=93.00;DP=13809 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7144,0,0:0.00,0.00:7144:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.834e+00,-3.834e+00 ././.:6540,6,0:1.522e-04,1.516e-04:6546:base_quality;t_lod:28,12,0:342,449,0:60,60,0:43,0:-3.517e+00,-3.518e+00 MT 6268 . C . . END=6271 GT:DP:MIN_DP:TLOD ./.:7144:7087:-3.834e+00 ./.:6671:6651:-3.805e+00 -MT 6272 . A C, . base_quality;t_lod CONTQ=93.00;DP=13833 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7166,0,0:0.00,0.00:7166:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.380e+00,-3.380e+00 ././.:6469,28,0:1.885e-04,1.529e-04:6497:base_quality;t_lod:28,5,0:342,419,0:60,60,0:27,0:0.010,0.010,4.310e-03:0.025,8.794e-05,0.975:-3.426e+00,-3.515e+00 +MT 6272 . A C, . base_quality;t_lod CONTQ=93.00;DP=13833 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7166,0,0:0.00,0.00:7166:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.380e+00,-3.380e+00 ././.:6469,28,0:1.885e-04,1.529e-04:6497:base_quality;t_lod:28,5,0:342,419,0:60,60,0:27,0:-3.426e+00,-3.515e+00 MT 6273 . A . . . GT:DP:MIN_DP:TLOD ./.:7173:7173:-3.777e+00 ./.:6650:6604:-3.801e+00 MT 6274 . C . . . GT:DP:MIN_DP:TLOD ./.:7157:7157:-3.022e+00 ./.:6650:6604:-3.801e+00 MT 6275 . A . . . GT:DP:MIN_DP:TLOD ./.:7135:7135:-3.666e+00 ./.:6650:6604:-3.801e+00 MT 6276 . G . . . GT:DP:MIN_DP:TLOD ./.:7162:7162:-3.479e+00 ./.:6650:6604:-3.801e+00 MT 6277 . G . . . GT:DP:MIN_DP:TLOD ./.:7094:7094:-3.822e+00 ./.:6650:6604:-3.801e+00 -MT 6278 . T C, . base_quality;t_lod CONTQ=93.00;DP=13763 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7138,0,0:0.00,0.00:7138:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.987e+00,-2.987e+00 ././.:6416,30,0:2.066e-04,1.541e-04:6446:base_quality;t_lod:28,6,0:341,402,0:60,60,0:30,0:0.010,0.010,4.654e-03:1.000,1.166e-08,2.253e-04:-3.385e+00,-3.512e+00 +MT 6278 . T C, . base_quality;t_lod CONTQ=93.00;DP=13763 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7138,0,0:0.00,0.00:7138:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.987e+00,-2.987e+00 ././.:6416,30,0:2.066e-04,1.541e-04:6446:base_quality;t_lod:28,6,0:341,402,0:60,60,0:30,0:-3.385e+00,-3.512e+00 MT 6279 . T . . . GT:DP:MIN_DP:TLOD ./.:7158:7158:-3.492e+00 ./.:6604:6577:-3.817e+00 MT 6280 . G . . END=6283 GT:DP:MIN_DP:TLOD ./.:7142:7033:-3.830e+00 ./.:6604:6577:-3.817e+00 -MT 6284 . A C, . base_quality;t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7142,0,0:0.00,0.00:7142:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.830e+00,-3.830e+00 ././.:6378,36,0:2.130e-04,1.551e-04:6414:base_quality;t_lod:29,5,0:342,335,0:60,60,0:27,0:0.010,0.010,5.613e-03:2.242e-04,6.519e-04,0.999:-3.372e+00,-3.508e+00 +MT 6284 . A C, . base_quality;t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7142,0,0:0.00,0.00:7142:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.830e+00,-3.830e+00 ././.:6378,36,0:2.130e-04,1.551e-04:6414:base_quality;t_lod:29,5,0:342,335,0:60,60,0:27,0:-3.372e+00,-3.508e+00 MT 6285 . G . . . GT:DP:MIN_DP:TLOD ./.:7142:7033:-3.830e+00 ./.:6524:6524:-3.719e+00 -MT 6286 . T G, . base_quality;t_lod CONTQ=93.00;DP=13674 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7106,0,0:0.00,0.00:7106:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.468e+00,-3.468e+00 ././.:6364,21,0:1.728e-04,1.555e-04:6385:base_quality;t_lod:28,7,0:341,393,0:60,60,0:46,0:0.010,0.010,3.289e-03:8.773e-03,8.402e-05,0.991:-3.463e+00,-3.507e+00 +MT 6286 . T G, . base_quality;t_lod CONTQ=93.00;DP=13674 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7106,0,0:0.00,0.00:7106:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.468e+00,-3.468e+00 ././.:6364,21,0:1.728e-04,1.555e-04:6385:base_quality;t_lod:28,7,0:341,393,0:60,60,0:46,0:-3.463e+00,-3.507e+00 MT 6287 . C . . END=6288 GT:DP:MIN_DP:TLOD ./.:7135:7133:-3.841e+00 ./.:6548:6545:-3.810e+00 -MT 6289 . A T, . base_quality;t_lod CONTQ=93.00;DP=13552 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7004,0,0:0.00,0.00:7004:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.640e+00,-2.640e+00 ././.:6310,3,0:1.639e-04,1.567e-04:6313:base_quality;t_lod:28,13,0:341,579,0:60,60,0:33,0:0.010,0.00,4.752e-04:4.878e-05,8.319e-04,0.999:-3.485e+00,-3.504e+00 +MT 6289 . A T, . base_quality;t_lod CONTQ=93.00;DP=13552 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7004,0,0:0.00,0.00:7004:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.640e+00,-2.640e+00 ././.:6310,3,0:1.639e-04,1.567e-04:6313:base_quality;t_lod:28,13,0:341,579,0:60,60,0:33,0:-3.485e+00,-3.504e+00 MT 6290 . C . . . GT:DP:MIN_DP:TLOD ./.:7133:7113:-3.801e+00 ./.:6515:6515:-3.752e+00 -MT 6291 . C A, . base_quality;t_lod CONTQ=93.00;DP=13651 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7133,0,0:0.00,0.00:7133:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.801e+00,-3.801e+00 ././.:6361,6,0:1.562e-04,1.555e-04:6367:base_quality;t_lod:28,12,0:341,359,0:60,60,0:31,0:0.010,0.010,9.424e-04:9.588e-05,3.477e-04,1.000:-3.505e+00,-3.507e+00 +MT 6291 . C A, . base_quality;t_lod CONTQ=93.00;DP=13651 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7133,0,0:0.00,0.00:7133:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.801e+00,-3.801e+00 ././.:6361,6,0:1.562e-04,1.555e-04:6367:base_quality;t_lod:28,12,0:341,359,0:60,60,0:31,0:-3.505e+00,-3.507e+00 MT 6292 . C . . . GT:DP:MIN_DP:TLOD ./.:7193:7193:-3.351e+00 ./.:6535:6513:-3.813e+00 MT 6293 . T . . . GT:DP:MIN_DP:TLOD ./.:7150:7150:-2.754e+00 ./.:6535:6513:-3.813e+00 MT 6294 . C . . END=6295 GT:DP:MIN_DP:TLOD ./.:7148:7110:-3.832e+00 ./.:6535:6513:-3.813e+00 -MT 6296 . C A, . base_quality;t_lod CONTQ=93.00;DP=13628 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7148,0,0:0.00,0.00:7148:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:6341,8,0:1.655e-04,1.560e-04:6349:base_quality;t_lod:29,12,0:341,376,0:60,60,0:35,0:0.010,0.010,1.260e-03:8.133e-04,8.503e-05,0.999:-3.480e+00,-3.506e+00 +MT 6296 . C A, . base_quality;t_lod CONTQ=93.00;DP=13628 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7148,0,0:0.00,0.00:7148:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:6341,8,0:1.655e-04,1.560e-04:6349:base_quality;t_lod:29,12,0:341,376,0:60,60,0:35,0:-3.480e+00,-3.506e+00 MT 6297 . T . . END=6298 GT:DP:MIN_DP:TLOD ./.:7148:7110:-3.832e+00 ./.:7146:7015:-3.824e+00 MT 6299 . A . . . GT:DP:MIN_DP:TLOD ./.:7096:7096:-3.449e+00 ./.:7146:7015:-3.824e+00 MT 6300 . G . . END=6304 GT:DP:MIN_DP:TLOD ./.:7120:6985:-3.770e+00 ./.:7146:7015:-3.824e+00 @@ -4231,7 +4227,7 @@ MT 6992 . A . . . GT:DP:MIN_DP:TLOD ./.:4270:4244:-3.458e+00 ./.:4351: MT 6993 . G . . END=6994 GT:DP:MIN_DP:TLOD ./.:4270:4244:-3.458e+00 ./.:4254:4194:-3.333e+00 MT 6995 . C . . . GT:DP:MIN_DP:TLOD ./.:4178:4178:-3.613e+00 ./.:4254:4194:-3.333e+00 MT 6996 . A . . . GT:DP:MIN_DP:TLOD ./.:4152:4152:-3.448e+00 ./.:4172:4172:-3.579e+00 -MT 6997 . T G, . base_quality;t_lod CONTQ=93.00;DP=7955 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4070,0,0:0.00,0.00:4070:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.595e+00,-3.595e+00 ././.:3818,12,0:2.785e-04,2.595e-04:3830:base_quality;t_lod:28,7,0:337,276,0:60,57,0:40,0:0.010,0.010,3.133e-03:4.203e-04,3.133e-04,0.999:-3.254e+00,-3.285e+00 +MT 6997 . T G, . base_quality;t_lod CONTQ=93.00;DP=7955 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4070,0,0:0.00,0.00:4070:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.595e+00,-3.595e+00 ././.:3818,12,0:2.785e-04,2.595e-04:3830:base_quality;t_lod:28,7,0:337,276,0:60,57,0:40,0:-3.254e+00,-3.285e+00 MT 6998 . C . . . GT:DP:MIN_DP:TLOD ./.:4070:4042:-3.595e+00 ./.:3793:3793:-3.498e+00 MT 6999 . G . . . GT:DP:MIN_DP:TLOD ./.:3954:3954:-3.224e+00 ./.:3723:3674:-3.569e+00 MT 7000 . T . . . GT:DP:MIN_DP:TLOD ./.:3964:3964:-3.578e+00 ./.:3723:3674:-3.569e+00 @@ -4247,12 +4243,12 @@ MT 7010 . C . . . GT:DP:MIN_DP:TLOD ./.:3463:3463:-3.502e+00 ./.:3303: MT 7011 . A . . . GT:DP:MIN_DP:TLOD ./.:3424:3424:-3.381e+00 ./.:3052:2868:-3.482e+00 MT 7012 . C . . . GT:DP:MIN_DP:TLOD ./.:3356:3356:-3.521e+00 ./.:3052:2868:-3.482e+00 MT 7013 . G . . END=7019 GT:DP:MIN_DP:TLOD ./.:3141:2931:-3.492e+00 ./.:3052:2868:-3.482e+00 -MT 7020 . G T, . base_quality;t_lod CONTQ=93.00;DP=5854 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:3141,0,0:0.00,0.00:3141:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.492e+00,-3.492e+00 ././.:2824,6,0:3.811e-04,3.499e-04:2830:base_quality;t_lod:26,15,0:338,404,0:60,59,0:29,0:0.010,0.010,2.120e-03:8.032e-04,2.035e-04,0.999:-3.118e+00,-3.155e+00 +MT 7020 . G T, . base_quality;t_lod CONTQ=93.00;DP=5854 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:3141,0,0:0.00,0.00:3141:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.492e+00,-3.492e+00 ././.:2824,6,0:3.811e-04,3.499e-04:2830:base_quality;t_lod:26,15,0:338,404,0:60,59,0:29,0:-3.118e+00,-3.155e+00 MT 7021 . T . . . GT:DP:MIN_DP:TLOD ./.:2929:2929:-2.853e+00 ./.:2648:2510:-3.415e+00 MT 7022 . T . . END=7027 GT:DP:MIN_DP:TLOD ./.:2757:2624:-3.448e+00 ./.:2648:2510:-3.415e+00 -MT 7028 . C T, . PASS CONTQ=93.00;DP=5177 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:2592,0,0:0.00,0.00:2592:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.314e+00,-2.314e+00 ././.:17,2479,0:0.996,3.961e-04:2496:23,28,0:341,339,0:60,60,0:27,0:0.990,0.990,0.993:0.015,0.051,0.934:7889.61,-3.101e+00 +MT 7028 . C T, . PASS CONTQ=93.00;DP=5177 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:2592,0,0:0.00,0.00:2592:.,.,.:.,.,.:.,.,.:.,.:-2.314e+00,-2.314e+00 ././.:17,2479,0:0.996,3.961e-04:2496:23,28,0:341,339,0:60,60,0:27,0:7889.61,-3.101e+00 MT 7029 . C . . END=7037 GT:DP:MIN_DP:TLOD ./.:2313:2052:-3.368e+00 ./.:2259:2069:-3.362e+00 -MT 7038 . T G, . base_quality;t_lod CONTQ=93.00;DP=4194 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:2313,0,0:0.00,0.00:2313:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.368e+00,-3.368e+00 ././.:2038,8,0:9.468e-04,4.810e-04:2046:base_quality;t_lod:29,6,0:340,343,0:60,59,0:23,0:0.010,0.010,3.910e-03:6.342e-04,4.945e-04,0.999:-2.137e+00,-3.017e+00 +MT 7038 . T G, . base_quality;t_lod CONTQ=93.00;DP=4194 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:2313,0,0:0.00,0.00:2313:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.368e+00,-3.368e+00 ././.:2038,8,0:9.468e-04,4.810e-04:2046:base_quality;t_lod:29,6,0:340,343,0:60,59,0:23,0:-2.137e+00,-3.017e+00 MT 7039 . A . . . GT:DP:MIN_DP:TLOD ./.:2313:2052:-3.368e+00 ./.:1760:1518:-3.290e+00 MT 7040 . T . . . GT:DP:MIN_DP:TLOD ./.:2002:2002:-2.935e+00 ./.:1760:1518:-3.290e+00 MT 7041 . G . . END=7048 GT:DP:MIN_DP:TLOD ./.:1789:1619:-3.272e+00 ./.:1760:1518:-3.290e+00 @@ -4265,7 +4261,7 @@ MT 7058 . T . . . GT:DP:MIN_DP:TLOD ./.:1079:1060:-2.993e+00 ./.:1120: MT 7059 . G . . . GT:DP:MIN_DP:TLOD ./.:1079:1060:-2.993e+00 ./.:1034:1007:-3.019e+00 MT 7060 . T . . . GT:DP:MIN_DP:TLOD ./.:1020:1020:-2.480e+00 ./.:1034:1007:-3.019e+00 MT 7061 . A . . . GT:DP:MIN_DP:TLOD ./.:899:796:-2.968e+00 ./.:966:966:-2.694e+00 -MT 7062 . T G, . t_lod CONTQ=93.00;DP=1840 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:899,0,0:0.00,0.00:899:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.968e+00,-2.968e+00 ././.:1042,1,0:1.554e-03,9.562e-04:1043:t_lod:28,27,0:337,196,0:60,60,0:8,0:0.010,0.00,9.588e-04:3.021e-04,8.765e-04,0.999:-2.380e+00,-2.718e+00 +MT 7062 . T G, . t_lod CONTQ=93.00;DP=1840 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:899,0,0:0.00,0.00:899:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.968e+00,-2.968e+00 ././.:1042,1,0:1.554e-03,9.562e-04:1043:t_lod:28,27,0:337,196,0:60,60,0:8,0:-2.380e+00,-2.718e+00 MT 7063 . T . . END=7065 GT:DP:MIN_DP:TLOD ./.:899:796:-2.968e+00 ./.:661:455:-2.952e+00 MT 7066 . C . . END=7067 GT:DP:MIN_DP:TLOD ./.:727:705:-2.394e+00 ./.:661:455:-2.952e+00 MT 7068 . A . . END=7073 GT:DP:MIN_DP:TLOD ./.:517:362:-2.803e+00 ./.:661:455:-2.952e+00 @@ -4395,9 +4391,9 @@ MT 7288 . T . . . GT:DP:MIN_DP:TLOD ./.:5482:5179:-3.755e+00 ./.:5690: MT 7289 . A . . . GT:DP:MIN_DP:TLOD ./.:5482:5179:-3.755e+00 ./.:5632:5632:-3.449e+00 MT 7290 . A . . END=7298 GT:DP:MIN_DP:TLOD ./.:5482:5179:-3.755e+00 ./.:5330:5128:-3.707e+00 MT 7299 . A . . . GT:DP:MIN_DP:TLOD ./.:5113:5113:-2.653e+00 ./.:5069:5069:-3.004e+00 -MT 7300 . T G, . base_quality;t_lod CONTQ=93.00;DP=9430 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4335,9,0:2.422e-04,2.285e-04:4344:base_quality;t_lod:29,9,0:337,400,0:60,60,0:46,0:0.010,0.010,2.072e-03:2.018e-03,1.111e-04,0.998:-3.315e+00,-3.340e+00 ./.:5005,0,0:0.00,0.00:5005:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.593e+00,-3.593e+00 +MT 7300 . T G, . base_quality;t_lod CONTQ=93.00;DP=9430 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4335,9,0:2.422e-04,2.285e-04:4344:base_quality;t_lod:29,9,0:337,400,0:60,60,0:46,0:-3.315e+00,-3.340e+00 ./.:5005,0,0:0.00,0.00:5005:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.593e+00,-3.593e+00 MT 7301 . A . . . GT:DP:MIN_DP:TLOD ./.:4317:4317:-3.627e+00 ./.:5005:4985:-3.593e+00 -MT 7302 . T A, . base_quality;t_lod CONTQ=93.00;DP=9276 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4249,1,0:2.336e-04,2.333e-04:4250:base_quality;t_lod:29,14,0:337,300,0:60,60,0:7,0:0.00,0.010,2.353e-04:2.242e-04,7.342e-05,1.000:-3.331e+00,-3.331e+00 ./.:4928,0,0:0.00,0.00:4928:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.410e+00,-3.410e+00 +MT 7302 . T A, . base_quality;t_lod CONTQ=93.00;DP=9276 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4249,1,0:2.336e-04,2.333e-04:4250:base_quality;t_lod:29,14,0:337,300,0:60,60,0:7,0:-3.331e+00,-3.331e+00 ./.:4928,0,0:0.00,0.00:4928:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.410e+00,-3.410e+00 MT 7303 . T . . . GT:DP:MIN_DP:TLOD ./.:4082:3937:-3.620e+00 ./.:4899:4899:-3.534e+00 MT 7304 . A . . . GT:DP:MIN_DP:TLOD ./.:4082:3937:-3.620e+00 ./.:4854:4854:-3.362e+00 MT 7305 . A . . END=7308 GT:DP:MIN_DP:TLOD ./.:4082:3937:-3.620e+00 ./.:4745:4657:-3.666e+00 @@ -4405,16 +4401,16 @@ MT 7309 . T . . . GT:DP:MIN_DP:TLOD ./.:4082:3937:-3.620e+00 ./.:4618: MT 7310 . T . . . GT:DP:MIN_DP:TLOD ./.:4082:3937:-3.620e+00 ./.:4576:4576:-3.629e+00 MT 7311 . T . . . GT:DP:MIN_DP:TLOD ./.:3896:3896:-3.301e+00 ./.:4537:4537:-2.406e+00 MT 7312 . T . . . GT:DP:MIN_DP:TLOD ./.:3854:3854:-3.579e+00 ./.:4454:4422:-3.606e+00 -MT 7313 . C A, . base_quality;t_lod CONTQ=93.00;DP=8311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3795,4,0:2.645e-04,2.610e-04:3799:base_quality;t_lod:28,12,0:336,341,0:60,60,0:24,0:0.00,0.010,1.053e-03:2.532e-03,8.280e-05,0.997:-3.277e+00,-3.282e+00 ./.:4454,0,0:0.00,0.00:4454:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.606e+00,-3.606e+00 -MT 7314 . A C, . base_quality;t_lod CONTQ=93.00;DP=8207 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3750,7,0:2.669e-04,2.639e-04:3757:base_quality;t_lod:29,7,0:336,384,0:60,60,0:22,0:0.00,0.010,1.863e-03:0.020,8.234e-05,0.980:-3.273e+00,-3.277e+00 ./.:4359,0,0:0.00,0.00:4359:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.362e+00,-3.362e+00 +MT 7313 . C A, . base_quality;t_lod CONTQ=93.00;DP=8311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3795,4,0:2.645e-04,2.610e-04:3799:base_quality;t_lod:28,12,0:336,341,0:60,60,0:24,0:-3.277e+00,-3.282e+00 ./.:4454,0,0:0.00,0.00:4454:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.606e+00,-3.606e+00 +MT 7314 . A C, . base_quality;t_lod CONTQ=93.00;DP=8207 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3750,7,0:2.669e-04,2.639e-04:3757:base_quality;t_lod:29,7,0:336,384,0:60,60,0:22,0:-3.273e+00,-3.277e+00 ./.:4359,0,0:0.00,0.00:4359:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.362e+00,-3.362e+00 MT 7315 . T . . . GT:DP:MIN_DP:TLOD ./.:3714:3714:-3.456e+00 ./.:4229:4147:-3.603e+00 MT 7316 . G . . END=7318 GT:DP:MIN_DP:TLOD ./.:3597:3538:-3.555e+00 ./.:4229:4147:-3.603e+00 MT 7319 . T . . . GT:DP:MIN_DP:TLOD ./.:3597:3538:-3.555e+00 ./.:4080:4054:-3.342e+00 MT 7320 . T . . . GT:DP:MIN_DP:TLOD ./.:3492:3492:-3.481e+00 ./.:4080:4054:-3.342e+00 MT 7321 . G . . END=7323 GT:DP:MIN_DP:TLOD ./.:3373:3310:-3.535e+00 ./.:3945:3885:-3.539e+00 MT 7324 . A . . . GT:DP:MIN_DP:TLOD ./.:3373:3310:-3.535e+00 ./.:3778:3686:-3.464e+00 -MT 7325 . A C, . base_quality;t_lod CONTQ=93.00;DP=7050 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3271,8,0:3.599e-04,3.023e-04:3279:base_quality;t_lod:29,6,0:335,342,0:60,60,0:30,0:0.010,0.010,2.440e-03:1.508e-03,1.602e-04,0.998:-3.140e+00,-3.218e+00 ./.:3778,0,0:0.00,0.00:3778:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.464e+00,-3.464e+00 -MT 7326 . G T, . base_quality;t_lod CONTQ=93.00;DP=7005 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3232,3,0:3.077e-04,3.064e-04:3235:base_quality;t_lod:29,12,0:335,403,0:60,60,0:10,0:0.00,0.010,9.274e-04:1.389e-03,9.823e-05,0.999:-3.211e+00,-3.213e+00 ./.:3778,0,0:0.00,0.00:3778:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.464e+00,-3.464e+00 +MT 7325 . A C, . base_quality;t_lod CONTQ=93.00;DP=7050 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3271,8,0:3.599e-04,3.023e-04:3279:base_quality;t_lod:29,6,0:335,342,0:60,60,0:30,0:-3.140e+00,-3.218e+00 ./.:3778,0,0:0.00,0.00:3778:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.464e+00,-3.464e+00 +MT 7326 . G T, . base_quality;t_lod CONTQ=93.00;DP=7005 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3232,3,0:3.077e-04,3.064e-04:3235:base_quality;t_lod:29,12,0:335,403,0:60,60,0:10,0:-3.211e+00,-3.213e+00 ./.:3778,0,0:0.00,0.00:3778:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.464e+00,-3.464e+00 MT 7327 . C . . . GT:DP:MIN_DP:TLOD ./.:3045:2896:-3.487e+00 ./.:3778:3686:-3.464e+00 MT 7328 . C . . . GT:DP:MIN_DP:TLOD ./.:3045:2896:-3.487e+00 ./.:3662:3662:-3.511e+00 MT 7329 . T . . END=7332 GT:DP:MIN_DP:TLOD ./.:3045:2896:-3.487e+00 ./.:3536:3373:-3.485e+00 @@ -4422,15 +4418,15 @@ MT 7333 . C . . . GT:DP:MIN_DP:TLOD ./.:3045:2896:-3.487e+00 ./.:3392: MT 7334 . T . . . GT:DP:MIN_DP:TLOD ./.:3045:2896:-3.487e+00 ./.:3321:3249:-3.492e+00 MT 7335 . T . . . GT:DP:MIN_DP:TLOD ./.:2853:2853:-2.986e+00 ./.:3321:3249:-3.492e+00 MT 7336 . C . . . GT:DP:MIN_DP:TLOD ./.:2812:2812:-3.443e+00 ./.:3321:3249:-3.492e+00 -MT 7337 . G A, . PASS CONTQ=93.00;DP=5998 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:8,2765,0:0.998,3.563e-04:2773:21,29,0:328,333,0:60,60,0:34,0:0.990,0.990,0.997:0.017,0.047,0.936:9139.52,-3.147e+00 ./.:3135,0,0:0.00,0.00:3135:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.794e+00,-1.794e+00 +MT 7337 . G A, . PASS CONTQ=93.00;DP=5998 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:8,2765,0:0.998,3.563e-04:2773:21,29,0:328,333,0:60,60,0:34,0:9139.52,-3.147e+00 ./.:3135,0,0:0.00,0.00:3135:.,.,.:.,.,.:.,.,.:.,.:-1.794e+00,-1.794e+00 MT 7338 . A . . END=7341 GT:DP:MIN_DP:TLOD ./.:2663:2592:-3.414e+00 ./.:2947:2695:-3.450e+00 -MT 7342 . G A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=5348 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:2653,0,0:3.766e-04,3.766e-04:2653:base_quality;contamination;mapping_quality;t_lod:26,0,0:332,0,0:60,0,0:0,0:0.00,0.00,0.00:1.174e-04,1.196e-04,1.000:-3.123e+00,-3.123e+00 ./.:2947,0,0:0.00,0.00:2947:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.450e+00,-3.450e+00 +MT 7342 . G A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=5348 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:2653,0,0:3.766e-04,3.766e-04:2653:base_quality;contamination;mapping_quality;t_lod:26,0,0:332,0,0:60,0,0:0,0:-3.123e+00,-3.123e+00 ./.:2947,0,0:0.00,0.00:2947:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.450e+00,-3.450e+00 MT 7343 . A . . END=7348 GT:DP:MIN_DP:TLOD ./.:2435:2343:-3.384e+00 ./.:2947:2695:-3.450e+00 -MT 7349 . C CATAATAGTAGAAGAACCCT, . t_lod CONTQ=93.00;DP=5051 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:2282,4,0:1.027e-03,4.281e-04:2286:t_lod:28,26,0:332,346,0:60,60,0:0,0:0.010,0.010,1.750e-03:8.783e-04,2.066e-04,0.999:-2.547e+00,-3.067e+00 ./.:2655,0,0:0.00,0.00:2655:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.829e+00,-2.829e+00 +MT 7349 . C CATAATAGTAGAAGAACCCT, . t_lod CONTQ=93.00;DP=5051 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:2282,4,0:1.027e-03,4.281e-04:2286:t_lod:28,26,0:332,346,0:60,60,0:0,0:-2.547e+00,-3.067e+00 ./.:2655,0,0:0.00,0.00:2655:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.829e+00,-2.829e+00 MT 7350 . C . . . GT:DP:MIN_DP:TLOD ./.:2231:2196:-3.351e+00 ./.:2619:2619:-3.281e+00 MT 7351 . T . . . GT:DP:MIN_DP:TLOD ./.:2231:2196:-3.351e+00 ./.:2573:2573:-2.889e+00 MT 7352 . A . . . GT:DP:MIN_DP:TLOD ./.:2231:2196:-3.351e+00 ./.:2407:2264:-3.355e+00 -MT 7353 . A T, . base_quality;t_lod CONTQ=93.00;DP=4511 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:2158,1,0:4.569e-04,4.559e-04:2159:base_quality;t_lod:28,11,0:332,318,0:60,60,0:35,0:0.00,0.010,4.632e-04:4.373e-04,1.449e-04,0.999:-3.039e+00,-3.040e+00 ./.:2407,0,0:0.00,0.00:2407:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.355e+00,-3.355e+00 +MT 7353 . A T, . base_quality;t_lod CONTQ=93.00;DP=4511 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:2158,1,0:4.569e-04,4.559e-04:2159:base_quality;t_lod:28,11,0:332,318,0:60,60,0:35,0:-3.039e+00,-3.040e+00 ./.:2407,0,0:0.00,0.00:2407:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.355e+00,-3.355e+00 MT 7354 . T . . END=7358 GT:DP:MIN_DP:TLOD ./.:2204:1986:-3.357e+00 ./.:2407:2264:-3.355e+00 MT 7359 . G . . . GT:DP:MIN_DP:TLOD ./.:2204:1986:-3.357e+00 ./.:2210:2210:-2.200e+00 MT 7360 . A . . . GT:DP:MIN_DP:TLOD ./.:2204:1986:-3.357e+00 ./.:2161:2161:-2.678e+00 @@ -5226,35 +5222,35 @@ MT 8662 . C . . END=8664 GT:DP:MIN_DP:TLOD ./.:7267:7265:-3.483e+00 ./ MT 8665 . C . . . GT:DP:MIN_DP:TLOD ./.:7236:7236:-3.780e+00 ./.:6175:5883:-3.801e+00 MT 8666 . A . . END=8667 GT:DP:MIN_DP:TLOD ./.:7185:7149:-3.500e+00 ./.:6175:5883:-3.801e+00 MT 8668 . T . . . GT:DP:MIN_DP:TLOD ./.:7130:7108:-3.803e+00 ./.:6175:5883:-3.801e+00 -MT 8669 . G A, . base_quality;t_lod CONTQ=93.00;DP=12436 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.803e+00,-3.803e+00 ././.:5211,7,0:1.920e-04,1.908e-04:5218:base_quality;t_lod:28,11,0:341,363,0:60,60,0:18,0:0.010,0.010,1.342e-03:3.525e-04,1.489e-04,0.999:-3.416e+00,-3.418e+00 +MT 8669 . G A, . base_quality;t_lod CONTQ=93.00;DP=12436 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.803e+00,-3.803e+00 ././.:5211,7,0:1.920e-04,1.908e-04:5218:base_quality;t_lod:28,11,0:341,363,0:60,60,0:18,0:-3.416e+00,-3.418e+00 MT 8670 . A . . . GT:DP:MIN_DP:TLOD ./.:7130:7108:-3.803e+00 ./.:5306:5306:-3.564e+00 -MT 8671 . C A, . base_quality;t_lod CONTQ=93.00;DP=12352 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.803e+00,-3.803e+00 ././.:5148,4,0:1.937e-04,1.930e-04:5152:base_quality;t_lod:28,12,0:341,278,0:60,60,0:47,0:0.010,0.010,7.764e-04:1.451e-04,1.963e-04,1.000:-3.412e+00,-3.413e+00 -MT 8672 . T A, . base_quality;t_lod CONTQ=93.00;DP=12305 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.803e+00,-3.803e+00 ././.:5099,6,0:2.658e-04,1.949e-04:5105:base_quality;t_lod:29,13,0:341,370,0:60,60,0:37,0:0.010,0.010,1.175e-03:1.301e-03,8.190e-05,0.999:-3.270e+00,-3.409e+00 +MT 8671 . C A, . base_quality;t_lod CONTQ=93.00;DP=12352 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.803e+00,-3.803e+00 ././.:5148,4,0:1.937e-04,1.930e-04:5152:base_quality;t_lod:28,12,0:341,278,0:60,60,0:47,0:-3.412e+00,-3.413e+00 +MT 8672 . T A, . base_quality;t_lod CONTQ=93.00;DP=12305 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.803e+00,-3.803e+00 ././.:5099,6,0:2.658e-04,1.949e-04:5105:base_quality;t_lod:29,13,0:341,370,0:60,60,0:37,0:-3.270e+00,-3.409e+00 MT 8673 . A . . . GT:DP:MIN_DP:TLOD ./.:7183:7183:-3.083e+00 ./.:5135:5094:-3.700e+00 MT 8674 . A . . . GT:DP:MIN_DP:TLOD ./.:7174:7174:-3.752e+00 ./.:5135:5094:-3.700e+00 MT 8675 . T . . . GT:DP:MIN_DP:TLOD ./.:7138:7138:-2.841e+00 ./.:5135:5094:-3.700e+00 -MT 8676 . C A, . base_quality;t_lod CONTQ=93.00;DP=12187 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.839e+00,-3.839e+00 ././.:4952,3,0:2.307e-04,2.005e-04:4955:base_quality;t_lod:28,12,0:343,341,0:60,60,0:30,0:0.010,0.00,6.054e-04:8.921e-05,4.201e-04,0.999:-3.334e+00,-3.397e+00 +MT 8676 . C A, . base_quality;t_lod CONTQ=93.00;DP=12187 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.839e+00,-3.839e+00 ././.:4952,3,0:2.307e-04,2.005e-04:4955:base_quality;t_lod:28,12,0:343,341,0:60,60,0:30,0:-3.334e+00,-3.397e+00 MT 8677 . A . . END=8678 GT:DP:MIN_DP:TLOD ./.:7198:7141:-3.839e+00 ./.:5002:4976:-3.702e+00 -MT 8679 . A C, . base_quality;t_lod CONTQ=93.00;DP=12063 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.839e+00,-3.839e+00 ././.:4820,9,0:2.425e-04,2.059e-04:4829:base_quality;t_lod:28,7,0:343,339,0:60,60,0:26,0:0.010,0.010,1.864e-03:4.410e-04,1.639e-04,0.999:-3.314e+00,-3.385e+00 +MT 8679 . A C, . base_quality;t_lod CONTQ=93.00;DP=12063 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.839e+00,-3.839e+00 ././.:4820,9,0:2.425e-04,2.059e-04:4829:base_quality;t_lod:28,7,0:343,339,0:60,60,0:26,0:-3.314e+00,-3.385e+00 MT 8680 . C . . . GT:DP:MIN_DP:TLOD ./.:7198:7141:-3.839e+00 ./.:4880:4880:-3.284e+00 MT 8681 . T . . END=8682 GT:DP:MIN_DP:TLOD ./.:7185:7172:-3.403e+00 ./.:4833:4815:-3.635e+00 -MT 8683 . A G, . base_quality;t_lod CONTQ=93.00;DP=11923 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7174,0,0:0.00,0.00:7174:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.768e+00,-3.768e+00 ././.:4643,10,0:3.662e-04,2.138e-04:4653:base_quality;t_lod:28,6,0:343,417,0:60,59,0:57,0:0.010,0.010,2.149e-03:1.612e-04,7.422e-04,0.999:-3.109e+00,-3.369e+00 +MT 8683 . A G, . base_quality;t_lod CONTQ=93.00;DP=11923 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7174,0,0:0.00,0.00:7174:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.768e+00,-3.768e+00 ././.:4643,10,0:3.662e-04,2.138e-04:4653:base_quality;t_lod:28,6,0:343,417,0:60,59,0:57,0:-3.109e+00,-3.369e+00 MT 8684 . C . . END=8685 GT:DP:MIN_DP:TLOD ./.:7174:7167:-3.768e+00 ./.:4632:4566:-3.667e+00 MT 8686 . T . . END=8687 GT:DP:MIN_DP:TLOD ./.:7191:7179:-3.440e+00 ./.:4632:4566:-3.667e+00 MT 8688 . A . . . GT:DP:MIN_DP:TLOD ./.:7228:7228:-3.635e+00 ./.:4632:4566:-3.667e+00 -MT 8689 . A C, . base_quality;t_lod CONTQ=93.00;DP=11738 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7219,0,0:0.00,0.00:7219:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.240e+00,-3.240e+00 ././.:4425,14,0:2.276e-04,2.243e-04:4439:base_quality;t_lod:29,8,0:344,309,0:60,58,0:40,0:0.010,0.010,3.154e-03:2.527e-04,5.239e-04,0.999:-3.342e+00,-3.348e+00 -MT 8690 . A C, . base_quality;t_lod CONTQ=93.00;DP=11700 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7215,0,0:0.00,0.00:7215:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.815e+00,-2.815e+00 ././.:4377,20,0:2.362e-04,2.265e-04:4397:base_quality;t_lod:28,8,0:344,348,0:60,59,0:60,0:0.010,0.010,4.549e-03:1.880e-04,2.209e-03,0.998:-3.326e+00,-3.344e+00 +MT 8689 . A C, . base_quality;t_lod CONTQ=93.00;DP=11738 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7219,0,0:0.00,0.00:7219:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.240e+00,-3.240e+00 ././.:4425,14,0:2.276e-04,2.243e-04:4439:base_quality;t_lod:29,8,0:344,309,0:60,58,0:40,0:-3.342e+00,-3.348e+00 +MT 8690 . A C, . base_quality;t_lod CONTQ=93.00;DP=11700 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7215,0,0:0.00,0.00:7215:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.815e+00,-2.815e+00 ././.:4377,20,0:2.362e-04,2.265e-04:4397:base_quality;t_lod:28,8,0:344,348,0:60,59,0:60,0:-3.326e+00,-3.344e+00 MT 8691 . A . . . GT:DP:MIN_DP:TLOD ./.:7198:7152:-3.810e+00 ./.:4437:4437:-3.618e+00 -MT 8692 . C A, . base_quality;t_lod CONTQ=93.00;DP=11555 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 ././.:4311,8,0:4.433e-04,2.301e-04:4319:base_quality;t_lod:28,14,0:344,511,0:60,60,0:9,0:0.010,0.010,1.852e-03:6.066e-03,8.317e-05,0.994:-2.973e+00,-3.337e+00 +MT 8692 . C A, . base_quality;t_lod CONTQ=93.00;DP=11555 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 ././.:4311,8,0:4.433e-04,2.301e-04:4319:base_quality;t_lod:28,14,0:344,511,0:60,60,0:9,0:-2.973e+00,-3.337e+00 MT 8693 . A . . . GT:DP:MIN_DP:TLOD ./.:7198:7152:-3.810e+00 ./.:4364:4364:-3.615e+00 -MT 8694 . A C, . base_quality;t_lod CONTQ=93.00;DP=11476 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 ././.:4225,16,0:2.816e-04,2.345e-04:4241:base_quality;t_lod:29,7,0:344,389,0:60,59,0:41,0:0.010,0.010,3.773e-03:7.493e-03,1.210e-04,0.992:-3.249e+00,-3.329e+00 +MT 8694 . A C, . base_quality;t_lod CONTQ=93.00;DP=11476 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 ././.:4225,16,0:2.816e-04,2.345e-04:4241:base_quality;t_lod:29,7,0:344,389,0:60,59,0:41,0:-3.249e+00,-3.329e+00 MT 8695 . A . . END=8696 GT:DP:MIN_DP:TLOD ./.:7198:7152:-3.810e+00 ./.:4239:4203:-3.622e+00 -MT 8697 . G A, . base_quality;t_lod CONTQ=93.00;DP=11332 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.383e+00,-3.383e+00 ././.:4115,9,0:2.436e-04,2.411e-04:4124:base_quality;t_lod:28,10,0:345,376,0:60,57,0:48,0:0.010,0.010,2.182e-03:0.014,8.373e-05,0.986:-3.312e+00,-3.317e+00 +MT 8697 . G A, . base_quality;t_lod CONTQ=93.00;DP=11332 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.383e+00,-3.383e+00 ././.:4115,9,0:2.436e-04,2.411e-04:4124:base_quality;t_lod:28,10,0:345,376,0:60,57,0:48,0:-3.312e+00,-3.317e+00 MT 8698 . A . . . GT:DP:MIN_DP:TLOD ./.:7152:7057:-3.831e+00 ./.:4128:4128:-3.366e+00 MT 8699 . T . . END=8700 GT:DP:MIN_DP:TLOD ./.:7152:7057:-3.831e+00 ./.:4068:4050:-3.601e+00 -MT 8701 . A G,T, . PASS CONTQ=93.00;DP=11118 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7152,0,0,0:0.00,0.00,0.00:7152:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00,-3.831e+00 ./././.:55,3893,7,0:0.989,2.543e-04,2.510e-04:3955:28,28,12,0:312,345,411,0:60,60,60,0:52,43,0:0.990,0.980,0.986:7.873e-04,0.887,0.112:12367.69,-3.118e+00,-3.123e+00 +MT 8701 . A G,T, . PASS CONTQ=93.00;DP=11118 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7152,0,0,0:0.00,0.00,0.00:7152:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.831e+00,-3.831e+00,-3.831e+00 ./././.:55,3893,7,0:0.989,2.543e-04,2.510e-04:3955:28,28,12,0:312,345,411,0:60,60,60,0:52,43,0:12367.69,-3.118e+00,-3.123e+00 MT 8702 . C . . . GT:DP:MIN_DP:TLOD ./.:7152:7057:-3.831e+00 ./.:3945:3945:-3.582e+00 -MT 8703 . C A, . base_quality;t_lod CONTQ=93.00;DP=11025 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7057,0,0:0.00,0.00:7057:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.708e+00,-2.708e+00 ././.:3869,3,0:2.567e-04,2.558e-04:3872:base_quality;t_lod:29,13,0:345,371,0:60,57,0:37,0:0.010,0.010,7.748e-04:5.644e-04,9.784e-05,0.999:-3.289e+00,-3.291e+00 +MT 8703 . C A, . base_quality;t_lod CONTQ=93.00;DP=11025 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7057,0,0:0.00,0.00:7057:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.708e+00,-2.708e+00 ././.:3869,3,0:2.567e-04,2.558e-04:3872:base_quality;t_lod:29,13,0:345,371,0:60,57,0:37,0:-3.289e+00,-3.291e+00 MT 8704 . A . . . GT:DP:MIN_DP:TLOD ./.:7011:7011:-3.788e+00 ./.:3872:3844:-3.583e+00 MT 8705 . T . . . GT:DP:MIN_DP:TLOD ./.:6943:6943:-3.280e+00 ./.:3872:3844:-3.583e+00 MT 8706 . A . . END=8707 GT:DP:MIN_DP:TLOD ./.:6827:6739:-3.723e+00 ./.:3872:3844:-3.583e+00 @@ -5265,7 +5261,7 @@ MT 8711 . A . . . GT:DP:MIN_DP:TLOD ./.:6691:6691:-3.308e+00 ./.:3861: MT 8712 . C . . . GT:DP:MIN_DP:TLOD ./.:6524:6448:-3.733e+00 ./.:3836:3836:-3.375e+00 MT 8713 . A . . END=8715 GT:DP:MIN_DP:TLOD ./.:6524:6448:-3.733e+00 ./.:3846:3834:-3.581e+00 MT 8716 . A . . . GT:DP:MIN_DP:TLOD ./.:6391:6359:-3.019e+00 ./.:3846:3846:-3.498e+00 -MT 8717 . A C, . base_quality;t_lod CONTQ=93.00;DP=10203 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6391,0,0:0.00,0.00:6391:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.019e+00,-3.019e+00 ././.:3832,11,0:2.663e-04,2.611e-04:3843:base_quality;t_lod:28,7,0:346,363,0:60,59,0:50,0:0.010,0.010,2.862e-03:6.728e-04,2.228e-04,0.999:-3.274e+00,-3.282e+00 +MT 8717 . A C, . base_quality;t_lod CONTQ=93.00;DP=10203 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6391,0,0:0.00,0.00:6391:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.019e+00,-3.019e+00 ././.:3832,11,0:2.663e-04,2.611e-04:3843:base_quality;t_lod:28,7,0:346,363,0:60,59,0:50,0:-3.274e+00,-3.282e+00 MT 8718 . A . . . GT:DP:MIN_DP:TLOD ./.:6299:6299:-3.790e+00 ./.:3810:3741:-3.589e+00 MT 8719 . G . . . GT:DP:MIN_DP:TLOD ./.:6221:6221:-3.260e+00 ./.:3810:3741:-3.589e+00 MT 8720 . G . . . GT:DP:MIN_DP:TLOD ./.:6142:6142:-2.776e+00 ./.:3810:3741:-3.589e+00 @@ -5280,7 +5276,7 @@ MT 8729 . G . . . GT:DP:MIN_DP:TLOD ./.:5723:5723:-2.582e+00 ./.:3334: MT 8730 . A . . . GT:DP:MIN_DP:TLOD ./.:5672:5672:-3.539e+00 ./.:3199:3129:-3.498e+00 MT 8731 . T . . . GT:DP:MIN_DP:TLOD ./.:5582:5582:-3.437e+00 ./.:3199:3129:-3.498e+00 MT 8732 . C . . END=8734 GT:DP:MIN_DP:TLOD ./.:5419:5299:-3.706e+00 ./.:3199:3129:-3.498e+00 -MT 8735 . T A, . base_quality;t_lod CONTQ=93.00;DP=8551 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5419,0,0:0.00,0.00:5419:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.706e+00,-3.706e+00 ././.:3151,2,0:3.146e-04,3.137e-04:3153:base_quality;t_lod:28,12,0:348,327,0:60,57,0:50,0:0.00,0.010,6.343e-04:1.366e-03,8.057e-05,0.999:-3.201e+00,-3.202e+00 +MT 8735 . T A, . base_quality;t_lod CONTQ=93.00;DP=8551 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5419,0,0:0.00,0.00:5419:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.706e+00,-3.706e+00 ././.:3151,2,0:3.146e-04,3.137e-04:3153:base_quality;t_lod:28,12,0:348,327,0:60,57,0:50,0:-3.201e+00,-3.202e+00 MT 8736 . T . . END=8738 GT:DP:MIN_DP:TLOD ./.:5419:5299:-3.706e+00 ./.:3126:2955:-3.475e+00 MT 8739 . A . . . GT:DP:MIN_DP:TLOD ./.:5241:5241:-3.089e+00 ./.:3126:2955:-3.475e+00 MT 8740 . C . . END=8741 GT:DP:MIN_DP:TLOD ./.:5144:5137:-3.695e+00 ./.:3126:2955:-3.475e+00 @@ -5355,7 +5351,7 @@ MT 8856 . G . . . GT:DP:MIN_DP:TLOD ./.:24:23:-1.451e+00 ./.:440:440:0 MT 8857 . G . . . GT:DP:MIN_DP:TLOD ./.:33:29:0.245 ./.:501:501:-1.829e+00 MT 8858 . G . . . GT:DP:MIN_DP:TLOD ./.:33:29:0.245 ./.:541:541:-2.468e+00 MT 8859 . C . . . GT:DP:MIN_DP:TLOD ./.:42:42:-1.641e+00 ./.:549:549:-2.718e+00 -MT 8860 . A G, . PASS CONTQ=93.00;DP=548 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:3,29,0:0.917,0.030:32:9,25,0:362,394,0:60,60,0:6,0:0.909,0.889,0.906:0.019,0.042,0.939:71.64,-1.212e+00 ././.:1,512,0:0.996,1.950e-03:513:2,24,0:354,367,0:58,39,0:43,0:0.990,0.990,0.998:0.025,0.029,0.946:1416.29,-2.408e+00 +MT 8860 . A G, . PASS CONTQ=93.00;DP=548 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:3,29,0:0.917,0.030:32:9,25,0:362,394,0:60,60,0:6,0:71.64,-1.212e+00 ././.:1,512,0:0.996,1.950e-03:513:2,24,0:354,367,0:58,39,0:43,0:1416.29,-2.408e+00 MT 8861 . C . . . GT:DP:MIN_DP:TLOD ./.:27:27:-1.172e+00 ./.:553:522:-2.745e+00 MT 8862 . A . . . GT:DP:MIN_DP:TLOD ./.:29:29:-1.501e+00 ./.:553:522:-2.745e+00 MT 8863 . G . . . GT:DP:MIN_DP:TLOD ./.:30:30:-1.071e+00 ./.:553:522:-2.745e+00 @@ -5371,7 +5367,7 @@ MT 8876 . T . . . GT:DP:MIN_DP:TLOD ./.:52:52:-1.006e+00 ./.:531:521:- MT 8877 . T . . END=8879 GT:DP:MIN_DP:TLOD ./.:52:51:-1.748e+00 ./.:531:521:-2.716e+00 MT 8880 . C . . . GT:DP:MIN_DP:TLOD ./.:52:51:-1.748e+00 ./.:533:533:-2.454e+00 MT 8881 . T . . . GT:DP:MIN_DP:TLOD ./.:52:51:-1.748e+00 ./.:534:532:-2.709e+00 -MT 8882 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=590 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:56,0,0:0.017,0.017:56:base_quality;contamination;mapping_quality;t_lod:27,0,0:403,0,0:60,0,0:0,0:0.00,0.00,0.00:7.438e-03,3.323e-03,0.989:-1.468e+00,-1.468e+00 ./.:534,0,0:0.00,0.00:534:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.709e+00,-2.709e+00 +MT 8882 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=590 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:56,0,0:0.017,0.017:56:base_quality;contamination;mapping_quality;t_lod:27,0,0:403,0,0:60,0,0:0,0:-1.468e+00,-1.468e+00 ./.:534,0,0:0.00,0.00:534:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.709e+00,-2.709e+00 MT 8883 . T . . . GT:DP:MIN_DP:TLOD ./.:61:56:-1.799e+00 ./.:534:532:-2.709e+00 MT 8884 . A . . . GT:DP:MIN_DP:TLOD ./.:61:56:-1.799e+00 ./.:536:536:-2.104e+00 MT 8885 . A . . . GT:DP:MIN_DP:TLOD ./.:61:56:-1.799e+00 ./.:534:534:-2.645e+00 @@ -5380,7 +5376,7 @@ MT 8887 . A . . . GT:DP:MIN_DP:TLOD ./.:61:56:-1.799e+00 ./.:502:502:- MT 8888 . T . . . GT:DP:MIN_DP:TLOD ./.:61:56:-1.799e+00 ./.:507:507:-2.483e+00 MT 8889 . T . . END=8891 GT:DP:MIN_DP:TLOD ./.:61:56:-1.799e+00 ./.:531:516:-2.654e+00 MT 8892 . A . . . GT:DP:MIN_DP:TLOD ./.:65:65:-1.261e+00 ./.:544:544:-2.241e+00 -MT 8893 . A C, . base_quality;t_lod CONTQ=93.00;DP=581 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:60,5,0:0.058,0.015:65:base_quality;t_lod:28,16,0:404,403,0:60,60,0:40,0:0.081,0.00,0.077:4.931e-03,0.058,0.937:0.817,-1.519e+00 ./.:513,0,0:0.00,0.00:513:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.12,1.12 +MT 8893 . A C, . base_quality;t_lod CONTQ=93.00;DP=581 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:60,5,0:0.058,0.015:65:base_quality;t_lod:28,16,0:404,403,0:60,60,0:40,0:0.817,-1.519e+00 ./.:513,0,0:0.00,0.00:513:PASS:.,.,.:.,.,.:.,.,.:.,.:1.12,1.12 MT 8894 . A . . . GT:DP:MIN_DP:TLOD ./.:123:123:-1.074e+00 ./.:520:520:-2.038e+00 MT 8895 . T . . . GT:DP:MIN_DP:TLOD ./.:127:127:-2.112e+00 ./.:532:532:-2.726e+00 MT 8896 . G . . . GT:DP:MIN_DP:TLOD ./.:123:123:-1.989e+00 ./.:538:538:-2.497e+00 @@ -5448,7 +5444,7 @@ MT 8992 . C . . . GT:DP:MIN_DP:TLOD ./.:4098:4098:-3.410e+00 ./.:4349: MT 8993 . T . . END=8995 GT:DP:MIN_DP:TLOD ./.:4134:4108:-3.609e+00 ./.:4442:4350:-3.639e+00 MT 8996 . C . . END=8997 GT:DP:MIN_DP:TLOD ./.:4284:4266:-3.489e+00 ./.:4442:4350:-3.639e+00 MT 8998 . G . . . GT:DP:MIN_DP:TLOD ./.:4297:4297:-3.523e+00 ./.:4442:4350:-3.639e+00 -MT 8999 . T C, . PASS CONTQ=93.00;DP=8652 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4438,0,0:0.00,0.00:4438:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.474e+00,-3.474e+00 ././.:23,4118,0:0.995,2.401e-04:4141:28,28,0:308,334,0:60,60,0:46,0:0.990,0.990,0.994:0.015,0.050,0.936:13169.63,-3.319e+00 +MT 8999 . T C, . PASS CONTQ=93.00;DP=8652 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4438,0,0:0.00,0.00:4438:.,.,.:.,.,.:.,.,.:.,.:-3.474e+00,-3.474e+00 ././.:23,4118,0:0.995,2.401e-04:4141:28,28,0:308,334,0:60,60,0:46,0:13169.63,-3.319e+00 MT 9000 . A . . . GT:DP:MIN_DP:TLOD ./.:4474:4474:-3.631e+00 ./.:4285:4262:-3.635e+00 MT 9001 . C . . . GT:DP:MIN_DP:TLOD ./.:4512:4512:-3.497e+00 ./.:4285:4262:-3.635e+00 MT 9002 . G . . . GT:DP:MIN_DP:TLOD ./.:4651:4528:-3.662e+00 ./.:4310:4310:-3.247e+00 @@ -5457,77 +5453,77 @@ MT 9006 . A . . . GT:DP:MIN_DP:TLOD ./.:4741:4741:-3.381e+00 ./.:4547: MT 9007 . A . . END=9008 GT:DP:MIN_DP:TLOD ./.:4797:4764:-3.667e+00 ./.:4547:4387:-3.667e+00 MT 9009 . C . . END=9010 GT:DP:MIN_DP:TLOD ./.:4876:4873:-3.490e+00 ./.:4547:4387:-3.667e+00 MT 9011 . C . . END=9013 GT:DP:MIN_DP:TLOD ./.:5033:4976:-3.679e+00 ./.:4547:4387:-3.667e+00 -MT 9014 . A T, . base_quality;t_lod CONTQ=93.00;DP=9870 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5132,0,0:0.00,0.00:5132:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.260e+00,-3.260e+00 ././.:4646,3,0:2.141e-04,2.135e-04:4649:base_quality;t_lod:29,12,0:331,525,0:60,60,0:17,0:0.010,0.010,6.453e-04:1.836e-04,1.379e-04,1.000:-3.368e+00,-3.369e+00 +MT 9014 . A T, . base_quality;t_lod CONTQ=93.00;DP=9870 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5132,0,0:0.00,0.00:5132:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.260e+00,-3.260e+00 ././.:4646,3,0:2.141e-04,2.135e-04:4649:base_quality;t_lod:29,12,0:331,525,0:60,60,0:17,0:-3.368e+00,-3.369e+00 MT 9015 . C . . END=9016 GT:DP:MIN_DP:TLOD ./.:5276:5167:-3.724e+00 ./.:4844:4826:-3.681e+00 -MT 9017 . T C, . base_quality;t_lod CONTQ=93.00;DP=10031 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5276,0,0:0.00,0.00:5276:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.724e+00,-3.724e+00 ././.:4769,7,0:2.204e-04,2.082e-04:4776:base_quality;t_lod:29,8,0:331,530,0:60,60,0:44,0:0.010,0.010,1.466e-03:9.358e-05,1.291e-03,0.999:-3.356e+00,-3.380e+00 +MT 9017 . T C, . base_quality;t_lod CONTQ=93.00;DP=10031 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5276,0,0:0.00,0.00:5276:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.724e+00,-3.724e+00 ././.:4769,7,0:2.204e-04,2.082e-04:4776:base_quality;t_lod:29,8,0:331,530,0:60,60,0:44,0:-3.356e+00,-3.380e+00 MT 9018 . T . . END=9020 GT:DP:MIN_DP:TLOD ./.:5276:5167:-3.724e+00 ./.:5051:4938:-3.702e+00 MT 9021 . T . . . GT:DP:MIN_DP:TLOD ./.:5433:5433:-3.450e+00 ./.:5051:4938:-3.702e+00 MT 9022 . G . . END=9023 GT:DP:MIN_DP:TLOD ./.:5530:5441:-3.738e+00 ./.:5051:4938:-3.702e+00 -MT 9024 . A C, . base_quality;t_lod CONTQ=93.00;DP=10576 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5530,0,0:0.00,0.00:5530:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.738e+00,-3.738e+00 ././.:5030,17,0:2.173e-04,1.972e-04:5047:base_quality;t_lod:29,3,0:331,351,0:60,60,0:33,0:0.010,0.010,3.368e-03:9.845e-05,8.286e-03,0.992:-3.363e+00,-3.404e+00 +MT 9024 . A C, . base_quality;t_lod CONTQ=93.00;DP=10576 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5530,0,0:0.00,0.00:5530:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.738e+00,-3.738e+00 ././.:5030,17,0:2.173e-04,1.972e-04:5047:base_quality;t_lod:29,3,0:331,351,0:60,60,0:33,0:-3.363e+00,-3.404e+00 MT 9025 . G . . . GT:DP:MIN_DP:TLOD ./.:5530:5441:-3.738e+00 ./.:5323:5171:-3.734e+00 MT 9026 . G . . . GT:DP:MIN_DP:TLOD ./.:5505:5505:-3.370e+00 ./.:5323:5171:-3.734e+00 MT 9027 . C . . END=9030 GT:DP:MIN_DP:TLOD ./.:5791:5671:-3.751e+00 ./.:5323:5171:-3.734e+00 -MT 9031 . C A, . base_quality;t_lod CONTQ=93.00;DP=11330 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5908,0,0:0.00,0.00:5908:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.846e+00,-2.846e+00 ././.:5338,1,0:1.862e-04,1.860e-04:5339:base_quality;t_lod:29,11,0:332,499,0:60,60,0:47,0:0.010,0.00,1.873e-04:5.180e-05,2.221e-04,1.000:-3.429e+00,-3.429e+00 +MT 9031 . C A, . base_quality;t_lod CONTQ=93.00;DP=11330 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5908,0,0:0.00,0.00:5908:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.846e+00,-2.846e+00 ././.:5338,1,0:1.862e-04,1.860e-04:5339:base_quality;t_lod:29,11,0:332,499,0:60,60,0:47,0:-3.429e+00,-3.429e+00 MT 9032 . T . . . GT:DP:MIN_DP:TLOD ./.:6041:5958:-3.770e+00 ./.:5519:5519:-3.702e+00 -MT 9033 . A G, . base_quality;t_lod CONTQ=93.00;DP=11457 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6041,0,0:0.00,0.00:6041:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.770e+00,-3.770e+00 ././.:5368,7,0:2.175e-04,1.848e-04:5375:base_quality;t_lod:29,7,0:332,440,0:60,60,0:42,0:0.010,0.010,1.302e-03:1.220e-04,4.410e-04,0.999:-3.361e+00,-3.432e+00 +MT 9033 . A G, . base_quality;t_lod CONTQ=93.00;DP=11457 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6041,0,0:0.00,0.00:6041:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.770e+00,-3.770e+00 ././.:5368,7,0:2.175e-04,1.848e-04:5375:base_quality;t_lod:29,7,0:332,440,0:60,60,0:42,0:-3.361e+00,-3.432e+00 MT 9034 . C . . END=9035 GT:DP:MIN_DP:TLOD ./.:6041:5958:-3.770e+00 ./.:5630:5603:-3.744e+00 -MT 9036 . C A, . t_lod CONTQ=93.00;DP=11572 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6041,0,0:0.00,0.00:6041:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.770e+00,-3.770e+00 ././.:5528,5,0:3.460e-04,1.798e-04:5533:t_lod:28,25,0:333,296,0:60,60,0:22,0:0.010,0.010,9.037e-04:4.115e-04,9.754e-05,0.999:-3.123e+00,-3.444e+00 +MT 9036 . C A, . t_lod CONTQ=93.00;DP=11572 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6041,0,0:0.00,0.00:6041:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.770e+00,-3.770e+00 ././.:5528,5,0:3.460e-04,1.798e-04:5533:t_lod:28,25,0:333,296,0:60,60,0:22,0:-3.123e+00,-3.444e+00 MT 9037 . A . . . GT:DP:MIN_DP:TLOD ./.:6182:6182:-3.269e+00 ./.:5744:5727:-3.747e+00 MT 9038 . T . . . GT:DP:MIN_DP:TLOD ./.:6238:6208:-3.792e+00 ./.:5744:5727:-3.747e+00 -MT 9039 . G T, . base_quality;t_lod CONTQ=93.00;DP=11947 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6238,0,0:0.00,0.00:6238:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:5626,2,0:1.768e-04,1.765e-04:5628:base_quality;t_lod:28,11,0:332,401,0:60,60,0:35,0:0.010,0.010,3.554e-04:9.790e-05,1.473e-04,1.000:-3.451e+00,-3.452e+00 +MT 9039 . G T, . base_quality;t_lod CONTQ=93.00;DP=11947 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6238,0,0:0.00,0.00:6238:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:5626,2,0:1.768e-04,1.765e-04:5628:base_quality;t_lod:28,11,0:332,401,0:60,60,0:35,0:-3.451e+00,-3.452e+00 MT 9040 . C . . . GT:DP:MIN_DP:TLOD ./.:6238:6208:-3.792e+00 ./.:5908:5846:-3.751e+00 -MT 9041 . A T, . base_quality;t_lod CONTQ=93.00;DP=11757 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5817,1,0:1.709e-04,1.707e-04:5818:base_quality;t_lod:29,13,0:334,365,0:60,51,0:48,0:0.010,0.00,1.719e-04:5.212e-05,1.673e-04,1.000:-3.466e+00,-3.467e+00 ./.:5908,0,0:0.00,0.00:5908:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.751e+00,-3.751e+00 +MT 9041 . A T, . base_quality;t_lod CONTQ=93.00;DP=11757 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5817,1,0:1.709e-04,1.707e-04:5818:base_quality;t_lod:29,13,0:334,365,0:60,51,0:48,0:-3.466e+00,-3.467e+00 ./.:5908,0,0:0.00,0.00:5908:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.751e+00,-3.751e+00 MT 9042 . C . . END=9044 GT:DP:MIN_DP:TLOD ./.:5955:5913:-3.776e+00 ./.:5908:5846:-3.751e+00 -MT 9045 . A C, . base_quality;t_lod CONTQ=93.00;DP=12034 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5948,39,0:2.344e-04,1.670e-04:5987:base_quality;t_lod:29,7,0:335,346,0:60,60,0:40,0:0.010,0.010,6.514e-03:9.750e-05,0.070,0.930:-3.337e+00,-3.476e+00 ././.:5809,37,0:1.925e-04,1.708e-04:5846:base_quality;t_lod:29,8,0:333,331,0:60,60,0:21,0:0.010,0.010,6.329e-03:1.990e-04,1.702e-03,0.998:-3.416e+00,-3.467e+00 +MT 9045 . A C, . base_quality;t_lod CONTQ=93.00;DP=12034 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5948,39,0:2.344e-04,1.670e-04:5987:base_quality;t_lod:29,7,0:335,346,0:60,60,0:40,0:-3.337e+00,-3.476e+00 ././.:5809,37,0:1.925e-04,1.708e-04:5846:base_quality;t_lod:29,8,0:333,331,0:60,60,0:21,0:-3.416e+00,-3.467e+00 MT 9046 . A . . END=9048 GT:DP:MIN_DP:TLOD ./.:6125:6068:-3.762e+00 ./.:6063:6019:-3.758e+00 -MT 9049 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=12355 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6142,6,0,0:5.556e-04,1.619e-04,1.619e-04:6148:t_lod:28,29,0,0:336,204,0,0:60,60,0,0:32,0,0:0.010,0.010,9.759e-04:9.635e-05,3.902e-04,1.000:-2.509e+00,-3.490e+00,-3.490e+00 ././.:5980,0,7,0:1.661e-04,1.793e-04,1.661e-04:5987:base_quality;t_lod:28,0,11,0:334,0,367,0:60,0,60,0:0,40,0:0.010,0.010,1.169e-03:1.128e-03,7.984e-05,0.999:-3.479e+00,-3.445e+00,-3.479e+00 -MT 9050 . G T, . base_quality;t_lod CONTQ=93.00;DP=12418 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6189,10,0:1.857e-04,1.608e-04:6199:base_quality;t_lod:28,12,0:336,297,0:60,60,0:23,0:0.010,0.010,1.613e-03:1.742e-04,2.167e-04,1.000:-3.432e+00,-3.493e+00 ././.:6000,8,0:2.207e-04,1.656e-04:6008:base_quality;t_lod:28,12,0:334,366,0:60,60,0:35,0:0.010,0.010,1.332e-03:2.636e-04,1.558e-04,1.000:-3.348e+00,-3.480e+00 +MT 9049 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=12355 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6142,6,0,0:5.556e-04,1.619e-04,1.619e-04:6148:t_lod:28,29,0,0:336,204,0,0:60,60,0,0:32,0,0:-2.509e+00,-3.490e+00,-3.490e+00 ././.:5980,0,7,0:1.661e-04,1.793e-04,1.661e-04:5987:base_quality;t_lod:28,0,11,0:334,0,367,0:60,0,60,0:0,40,0:-3.479e+00,-3.445e+00,-3.479e+00 +MT 9050 . G T, . base_quality;t_lod CONTQ=93.00;DP=12418 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6189,10,0:1.857e-04,1.608e-04:6199:base_quality;t_lod:28,12,0:336,297,0:60,60,0:23,0:-3.432e+00,-3.493e+00 ././.:6000,8,0:2.207e-04,1.656e-04:6008:base_quality;t_lod:28,12,0:334,366,0:60,60,0:35,0:-3.348e+00,-3.480e+00 MT 9051 . A . . . GT:DP:MIN_DP:TLOD ./.:6297:6297:-3.688e+00 ./.:6201:6201:-2.992e+00 -MT 9052 . A C, . base_quality;t_lod CONTQ=93.00;DP=12610 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6260,27,0:1.634e-04,1.589e-04:6287:base_quality;t_lod:29,4,0:336,391,0:60,60,0:25,0:0.010,0.010,4.295e-03:1.682e-04,1.208e-03,0.999:-3.486e+00,-3.498e+00 ./.:6228,0,0:0.00,0.00:6228:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.399e+00,-3.399e+00 +MT 9052 . A C, . base_quality;t_lod CONTQ=93.00;DP=12610 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6260,27,0:1.634e-04,1.589e-04:6287:base_quality;t_lod:29,4,0:336,391,0:60,60,0:25,0:-3.486e+00,-3.498e+00 ./.:6228,0,0:0.00,0.00:6228:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.399e+00,-3.399e+00 MT 9053 . G . . END=9057 GT:DP:MIN_DP:TLOD ./.:6534:6343:-3.818e+00 ./.:6261:6220:-3.796e+00 MT 9058 . A . . . GT:DP:MIN_DP:TLOD ./.:6534:6343:-3.818e+00 ./.:6446:6446:-3.396e+00 MT 9059 . C . . END=9060 GT:DP:MIN_DP:TLOD ./.:6534:6343:-3.818e+00 ./.:6530:6470:-3.807e+00 MT 9061 . C . . . GT:DP:MIN_DP:TLOD ./.:6743:6743:-3.122e+00 ./.:6530:6470:-3.807e+00 MT 9062 . T . . END=9063 GT:DP:MIN_DP:TLOD ./.:6737:6691:-3.813e+00 ./.:6530:6470:-3.807e+00 -MT 9064 . G A, . base_quality;t_lod CONTQ=93.00;DP=13272 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6737,0,0:0.00,0.00:6737:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.813e+00,-3.813e+00 ././.:6378,6,0:2.708e-04,1.551e-04:6384:base_quality;t_lod:28,6,0:335,337,0:60,60,0:10,0:0.010,0.010,9.398e-04:1.329e-04,2.067e-04,1.000:-3.054e+00,-3.508e+00 -MT 9065 . C A, . base_quality;t_lod CONTQ=93.00;DP=13276 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6737,0,0:0.00,0.00:6737:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.813e+00,-3.813e+00 ././.:6393,6,0:2.376e-04,1.546e-04:6399:base_quality;t_lod:29,12,0:335,314,0:60,59,0:48,0:0.010,0.010,9.376e-04:8.393e-05,4.554e-04,0.999:-3.310e+00,-3.510e+00 -MT 9066 . A C, . base_quality;t_lod CONTQ=93.00;DP=13419 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6770,2,0:1.470e-04,1.468e-04:6772:base_quality;t_lod:29,9,0:337,410,0:60,60,0:35,0:0.00,0.010,2.953e-04:3.290e-04,4.834e-05,1.000:-3.532e+00,-3.532e+00 ./.:6552,0,0:0.00,0.00:6552:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.626e+00,-3.626e+00 -MT 9067 . A C, . base_quality;t_lod CONTQ=93.00;DP=13306 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6726,0,0:0.00,0.00:6726:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 ././.:6363,26,0:1.713e-04,1.551e-04:6389:base_quality;t_lod:29,7,0:335,386,0:60,60,0:19,0:0.010,0.010,4.069e-03:4.100e-04,2.912e-04,0.999:-3.466e+00,-3.508e+00 -MT 9068 . T A, . base_quality;t_lod CONTQ=93.00;DP=13384 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6665,4,0:1.512e-04,1.485e-04:6669:base_quality;t_lod:29,12,0:336,373,0:60,60,0:39,0:0.010,0.010,5.998e-04:1.084e-04,1.236e-04,1.000:-3.520e+00,-3.527e+00 ./.:6531,0,0:0.00,0.00:6531:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.767e+00,-3.767e+00 +MT 9064 . G A, . base_quality;t_lod CONTQ=93.00;DP=13272 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6737,0,0:0.00,0.00:6737:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.813e+00,-3.813e+00 ././.:6378,6,0:2.708e-04,1.551e-04:6384:base_quality;t_lod:28,6,0:335,337,0:60,60,0:10,0:-3.054e+00,-3.508e+00 +MT 9065 . C A, . base_quality;t_lod CONTQ=93.00;DP=13276 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6737,0,0:0.00,0.00:6737:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.813e+00,-3.813e+00 ././.:6393,6,0:2.376e-04,1.546e-04:6399:base_quality;t_lod:29,12,0:335,314,0:60,59,0:48,0:-3.310e+00,-3.510e+00 +MT 9066 . A C, . base_quality;t_lod CONTQ=93.00;DP=13419 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6770,2,0:1.470e-04,1.468e-04:6772:base_quality;t_lod:29,9,0:337,410,0:60,60,0:35,0:-3.532e+00,-3.532e+00 ./.:6552,0,0:0.00,0.00:6552:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.626e+00,-3.626e+00 +MT 9067 . A C, . base_quality;t_lod CONTQ=93.00;DP=13306 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6726,0,0:0.00,0.00:6726:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 ././.:6363,26,0:1.713e-04,1.551e-04:6389:base_quality;t_lod:29,7,0:335,386,0:60,60,0:19,0:-3.466e+00,-3.508e+00 +MT 9068 . T A, . base_quality;t_lod CONTQ=93.00;DP=13384 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6665,4,0:1.512e-04,1.485e-04:6669:base_quality;t_lod:29,12,0:336,373,0:60,60,0:39,0:-3.520e+00,-3.527e+00 ./.:6531,0,0:0.00,0.00:6531:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.767e+00,-3.767e+00 MT 9069 . A . . END=9070 GT:DP:MIN_DP:TLOD ./.:6714:6712:-3.800e+00 ./.:6531:6516:-3.767e+00 -MT 9071 . C A, . base_quality;t_lod CONTQ=93.00;DP=13321 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6739,0,0:0.00,0.00:6739:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.339e+00,-3.339e+00 ././.:6402,4,0:2.939e-04,1.546e-04:6406:base_quality;t_lod:28,9,0:335,295,0:60,60,0:51,0:0.010,0.010,6.244e-04:2.272e-04,8.238e-05,1.000:-2.753e+00,-3.510e+00 -MT 9072 . A T, . base_quality;t_lod CONTQ=93.00;DP=13452 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6796,1,0:1.678e-04,1.463e-04:6797:base_quality;t_lod:28,18,0:335,135,0:60,60,0:46,0:0.010,0.00,1.471e-04:4.428e-05,1.398e-04,1.000:-3.472e+00,-3.534e+00 ./.:6564,0,0:0.00,0.00:6564:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.751e+00,-3.751e+00 -MT 9073 . A C, . base_quality;t_lod CONTQ=93.00;DP=13391 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6634,49,0:1.815e-04,1.492e-04:6683:base_quality;t_lod:28,7,0:335,429,0:60,60,0:27,0:0.010,0.010,7.332e-03:1.237e-04,9.377e-03,0.990:-3.444e+00,-3.525e+00 ././.:6356,31,0:1.758e-04,1.557e-04:6387:base_quality;t_lod:28,7,0:333,355,0:60,60,0:27,0:0.010,0.010,4.854e-03:1.182e-04,3.975e-03,0.996:-3.456e+00,-3.507e+00 +MT 9071 . C A, . base_quality;t_lod CONTQ=93.00;DP=13321 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6739,0,0:0.00,0.00:6739:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.339e+00,-3.339e+00 ././.:6402,4,0:2.939e-04,1.546e-04:6406:base_quality;t_lod:28,9,0:335,295,0:60,60,0:51,0:-2.753e+00,-3.510e+00 +MT 9072 . A T, . base_quality;t_lod CONTQ=93.00;DP=13452 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6796,1,0:1.678e-04,1.463e-04:6797:base_quality;t_lod:28,18,0:335,135,0:60,60,0:46,0:-3.472e+00,-3.534e+00 ./.:6564,0,0:0.00,0.00:6564:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.751e+00,-3.751e+00 +MT 9073 . A C, . base_quality;t_lod CONTQ=93.00;DP=13391 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6634,49,0:1.815e-04,1.492e-04:6683:base_quality;t_lod:28,7,0:335,429,0:60,60,0:27,0:-3.444e+00,-3.525e+00 ././.:6356,31,0:1.758e-04,1.557e-04:6387:base_quality;t_lod:28,7,0:333,355,0:60,60,0:27,0:-3.456e+00,-3.507e+00 MT 9074 . C . . END=9076 GT:DP:MIN_DP:TLOD ./.:6627:6523:-3.825e+00 ./.:6545:6485:-3.815e+00 -MT 9077 . T G, . base_quality;t_lod CONTQ=93.00;DP=12897 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6627,0,0:0.00,0.00:6627:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.825e+00,-3.825e+00 ././.:6255,12,0:1.614e-04,1.589e-04:6267:base_quality;t_lod:29,7,0:333,291,0:60,60,0:35,0:0.010,0.010,1.915e-03:8.852e-04,1.032e-04,0.999:-3.491e+00,-3.498e+00 -MT 9078 . T C, . base_quality;t_lod CONTQ=93.00;DP=12849 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6627,0,0:0.00,0.00:6627:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.825e+00,-3.825e+00 ././.:6211,14,0:1.735e-04,1.601e-04:6225:base_quality;t_lod:29,8,0:332,435,0:60,60,0:24,0:0.010,0.010,2.249e-03:8.483e-04,1.249e-04,0.999:-3.460e+00,-3.494e+00 -MT 9079 . A G,C, . base_quality;t_lod CONTQ=93.00;DP=12812 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6627,0,0,0:0.00,0.00,0.00:6627:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.825e+00,-3.825e+00,-3.825e+00 ./././.:6168,2,27,0:1.819e-04,1.692e-04,1.592e-04:6197:base_quality;t_lod:29,15,8,0:332,419,397,0:60,56,60,0:25,37,0:0.010,0.010,3.241e-04:9.375e-05,1.327e-04,1.000:-3.261e+00,-3.295e+00,-3.321e+00 -MT 9080 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=12767 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6346,54,0,0:1.818e-04,1.563e-04,1.563e-04:6400:base_quality;t_lod:28,7,0,0:334,359,0,0:60,60,0,0:25,0,0:0.010,0.010,8.438e-03:2.218e-05,0.747,0.253:-3.442e+00,-3.505e+00,-3.505e+00 ./././.:6084,47,5,0:3.208e-04,1.635e-04,1.629e-04:6136:base_quality;t_lod:28,7,10,0:332,371,333,0:60,60,59,0:30,16,0:0.010,0.010,7.666e-03:7.536e-07,0.989,0.011:-2.986e+00,-3.309e+00,-3.311e+00 -MT 9081 . C A, . t_lod CONTQ=93.00;DP=12578 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6375,0,0:0.00,0.00:6375:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.782e+00,-3.782e+00 ././.:6200,2,0:1.676e-04,1.612e-04:6202:t_lod:28,22,0:332,314,0:60,60,0:60,0:0.010,0.010,3.225e-04:9.358e-05,1.318e-04,1.000:-3.475e+00,-3.492e+00 -MT 9082 . C T, . base_quality;t_lod CONTQ=93.00;DP=12582 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6325,3,0:2.026e-04,1.574e-04:6328:base_quality;t_lod:28,13,0:334,260,0:60,60,0:70,0:0.010,0.010,4.741e-04:1.635e-04,8.878e-05,1.000:-3.380e+00,-3.502e+00 ././.:6063,5,0:1.659e-04,1.641e-04:6068:base_quality;t_lod:28,14,0:332,489,0:60,60,0:23,0:0.00,0.010,8.240e-04:1.763e-03,5.872e-05,0.998:-3.479e+00,-3.484e+00 +MT 9077 . T G, . base_quality;t_lod CONTQ=93.00;DP=12897 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6627,0,0:0.00,0.00:6627:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.825e+00,-3.825e+00 ././.:6255,12,0:1.614e-04,1.589e-04:6267:base_quality;t_lod:29,7,0:333,291,0:60,60,0:35,0:-3.491e+00,-3.498e+00 +MT 9078 . T C, . base_quality;t_lod CONTQ=93.00;DP=12849 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6627,0,0:0.00,0.00:6627:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.825e+00,-3.825e+00 ././.:6211,14,0:1.735e-04,1.601e-04:6225:base_quality;t_lod:29,8,0:332,435,0:60,60,0:24,0:-3.460e+00,-3.494e+00 +MT 9079 . A G,C, . base_quality;t_lod CONTQ=93.00;DP=12812 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6627,0,0,0:0.00,0.00,0.00:6627:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.825e+00,-3.825e+00,-3.825e+00 ./././.:6168,2,27,0:1.819e-04,1.692e-04,1.592e-04:6197:base_quality;t_lod:29,15,8,0:332,419,397,0:60,56,60,0:25,37,0:-3.261e+00,-3.295e+00,-3.321e+00 +MT 9080 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=12767 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6346,54,0,0:1.818e-04,1.563e-04,1.563e-04:6400:base_quality;t_lod:28,7,0,0:334,359,0,0:60,60,0,0:25,0,0:-3.442e+00,-3.505e+00,-3.505e+00 ./././.:6084,47,5,0:3.208e-04,1.635e-04,1.629e-04:6136:base_quality;t_lod:28,7,10,0:332,371,333,0:60,60,59,0:30,16,0:-2.986e+00,-3.309e+00,-3.311e+00 +MT 9081 . C A, . t_lod CONTQ=93.00;DP=12578 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6375,0,0:0.00,0.00:6375:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.782e+00,-3.782e+00 ././.:6200,2,0:1.676e-04,1.612e-04:6202:t_lod:28,22,0:332,314,0:60,60,0:60,0:-3.475e+00,-3.492e+00 +MT 9082 . C T, . base_quality;t_lod CONTQ=93.00;DP=12582 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6325,3,0:2.026e-04,1.574e-04:6328:base_quality;t_lod:28,13,0:334,260,0:60,60,0:70,0:-3.380e+00,-3.502e+00 ././.:6063,5,0:1.659e-04,1.641e-04:6068:base_quality;t_lod:28,14,0:332,489,0:60,60,0:23,0:-3.479e+00,-3.484e+00 MT 9083 . T . . . GT:DP:MIN_DP:TLOD ./.:6302:6273:-3.703e+00 ./.:6190:6190:-3.489e+00 -MT 9084 . T G, . base_quality;t_lod CONTQ=93.00;DP=12348 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6302,0,0:0.00,0.00:6302:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.703e+00,-3.703e+00 ././.:5936,15,0:1.723e-04,1.674e-04:5951:base_quality;t_lod:28,4,0:331,315,0:60,59,0:38,0:0.010,0.010,2.521e-03:8.196e-05,6.949e-03,0.993:-3.463e+00,-3.475e+00 -MT 9085 . C T,A, . t_lod CONTQ=93.00;DP=12146 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6194,1,1,0:1.902e-04,1.840e-04,1.589e-04:6196:t_lod:28,28,11,0:334,439,135,0:60,57,60,0:49,33,0:0.010,0.00,1.614e-04:4.770e-05,1.626e-04,1.000:-3.240e+00,-3.255e+00,-3.322e+00 ./.:5984,0,0,0:0.00,0.00,0.00:5984:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.775e+00,-3.775e+00,-3.775e+00 -MT 9086 . C A, . base_quality;t_lod CONTQ=93.00;DP=12099 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6151,5,0:2.982e-04,1.618e-04:6156:base_quality;t_lod:29,13,0:333,419,0:60,60,0:34,0:0.00,0.010,8.122e-04:2.164e-03,5.478e-05,0.998:-3.155e+00,-3.490e+00 ./.:5984,0,0:0.00,0.00:5984:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.775e+00,-3.775e+00 +MT 9084 . T G, . base_quality;t_lod CONTQ=93.00;DP=12348 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6302,0,0:0.00,0.00:6302:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.703e+00,-3.703e+00 ././.:5936,15,0:1.723e-04,1.674e-04:5951:base_quality;t_lod:28,4,0:331,315,0:60,59,0:38,0:-3.463e+00,-3.475e+00 +MT 9085 . C T,A, . t_lod CONTQ=93.00;DP=12146 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6194,1,1,0:1.902e-04,1.840e-04,1.589e-04:6196:t_lod:28,28,11,0:334,439,135,0:60,57,60,0:49,33,0:-3.240e+00,-3.255e+00,-3.322e+00 ./.:5984,0,0,0:0.00,0.00,0.00:5984:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.775e+00,-3.775e+00,-3.775e+00 +MT 9086 . C A, . base_quality;t_lod CONTQ=93.00;DP=12099 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6151,5,0:2.982e-04,1.618e-04:6156:base_quality;t_lod:29,13,0:333,419,0:60,60,0:34,0:-3.155e+00,-3.490e+00 ./.:5984,0,0:0.00,0.00:5984:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.775e+00,-3.775e+00 MT 9087 . C . . END=9090 GT:DP:MIN_DP:TLOD ./.:6045:5916:-3.777e+00 ./.:5984:5853:-3.775e+00 -MT 9091 . A C, . base_quality;t_lod CONTQ=93.00;DP=11714 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6045,0,0:0.00,0.00:6045:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.777e+00,-3.777e+00 ././.:5652,26,0:2.276e-04,1.754e-04:5678:base_quality;t_lod:29,8,0:331,381,0:60,60,0:26,0:0.010,0.010,4.579e-03:0.219,6.547e-05,0.781:-3.347e+00,-3.455e+00 +MT 9091 . A C, . base_quality;t_lod CONTQ=93.00;DP=11714 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6045,0,0:0.00,0.00:6045:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.777e+00,-3.777e+00 ././.:5652,26,0:2.276e-04,1.754e-04:5678:base_quality;t_lod:29,8,0:331,381,0:60,60,0:26,0:-3.347e+00,-3.455e+00 MT 9092 . C . . . GT:DP:MIN_DP:TLOD ./.:6045:5916:-3.777e+00 ./.:5760:5760:-3.760e+00 -MT 9093 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=11669 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5847,0,4,0:1.701e-04,1.718e-04,1.701e-04:5851:base_quality;t_lod:28,0,11,0:333,0,391,0:60,0,60,0:0,57,0:0.010,0.00,6.836e-04:4.973e-05,2.216e-03,0.998:-3.468e+00,-3.464e+00,-3.468e+00 ././.:5610,16,0,0:2.069e-04,1.772e-04,1.772e-04:5626:base_quality;t_lod:28,7,0,0:330,403,0,0:60,60,0,0:21,0,0:0.010,0.010,2.844e-03:1.944e-04,4.697e-04,0.999:-3.384e+00,-3.450e+00,-3.450e+00 +MT 9093 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=11669 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5847,0,4,0:1.701e-04,1.718e-04,1.701e-04:5851:base_quality;t_lod:28,0,11,0:333,0,391,0:60,0,60,0:0,57,0:-3.468e+00,-3.464e+00,-3.468e+00 ././.:5610,16,0,0:2.069e-04,1.772e-04,1.772e-04:5626:base_quality;t_lod:28,7,0,0:330,403,0,0:60,60,0,0:21,0,0:-3.384e+00,-3.450e+00,-3.450e+00 MT 9094 . C . . . GT:DP:MIN_DP:TLOD ./.:5830:5796:-3.767e+00 ./.:5684:5684:-3.749e+00 -MT 9095 . T C, . base_quality;t_lod CONTQ=93.00;DP=11436 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5830,0,0:0.00,0.00:5830:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.767e+00,-3.767e+00 ././.:5523,17,0:2.843e-04,1.797e-04:5540:base_quality;t_lod:29,7,0:329,409,0:60,60,0:20,0:0.010,0.010,3.069e-03:2.171e-03,1.172e-04,0.998:-3.230e+00,-3.444e+00 -MT 9096 . T G,C, . base_quality;t_lod CONTQ=93.00;DP=11418 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:5686,10,34,0:1.858e-04,2.216e-04,1.746e-04:5730:base_quality;t_lod:29,8,7,0:332,423,408,0:60,60,60,0:47,25,0:0.010,0.010,5.944e-03:0.975,1.827e-06,0.025:-3.254e+00,-3.177e+00,-3.281e+00 ././.:5487,8,0,0:1.823e-04,1.813e-04,1.813e-04:5495:base_quality;t_lod:29,8,0,0:330,285,0,0:60,60,0,0:50,0,0:0.010,0.010,1.456e-03:1.060e-04,6.203e-04,0.999:-3.438e+00,-3.441e+00,-3.441e+00 +MT 9095 . T C, . base_quality;t_lod CONTQ=93.00;DP=11436 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5830,0,0:0.00,0.00:5830:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.767e+00,-3.767e+00 ././.:5523,17,0:2.843e-04,1.797e-04:5540:base_quality;t_lod:29,7,0:329,409,0:60,60,0:20,0:-3.230e+00,-3.444e+00 +MT 9096 . T G,C, . base_quality;t_lod CONTQ=93.00;DP=11418 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:5686,10,34,0:1.858e-04,2.216e-04,1.746e-04:5730:base_quality;t_lod:29,8,7,0:332,423,408,0:60,60,60,0:47,25,0:-3.254e+00,-3.177e+00,-3.281e+00 ././.:5487,8,0,0:1.823e-04,1.813e-04,1.813e-04:5495:base_quality;t_lod:29,8,0,0:330,285,0,0:60,60,0,0:50,0,0:-3.438e+00,-3.441e+00,-3.441e+00 MT 9097 . A . . . GT:DP:MIN_DP:TLOD ./.:5694:5669:-3.732e+00 ./.:5562:5562:-3.490e+00 -MT 9098 . T G, . base_quality;t_lod CONTQ=93.00;DP=11179 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5694,0,0:0.00,0.00:5694:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.732e+00,-3.732e+00 ././.:5400,12,0:1.910e-04,1.840e-04:5412:base_quality;t_lod:28,7,0:329,435,0:60,60,0:35,0:0.010,0.010,2.217e-03:4.998e-04,1.685e-04,0.999:-3.418e+00,-3.434e+00 -MT 9099 . C A, . base_quality;t_lod CONTQ=93.00;DP=11127 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5602,8,0:1.867e-04,1.775e-04:5610:base_quality;t_lod:28,12,0:333,348,0:60,60,0:25,0:0.00,0.010,1.426e-03:0.016,5.995e-05,0.984:-3.428e+00,-3.450e+00 ./.:5454,0,0:0.00,0.00:5454:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.722e+00,-3.722e+00 -MT 9100 . A C, . base_quality;t_lod CONTQ=93.00;DP=11087 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5525,30,0:1.986e-04,1.796e-04:5555:base_quality;t_lod:29,8,0:332,384,0:60,60,0:43,0:0.010,0.010,5.401e-03:1.749e-03,1.691e-04,0.998:-3.402e+00,-3.445e+00 ./.:5454,0,0:0.00,0.00:5454:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.722e+00,-3.722e+00 -MT 9101 . T G, . base_quality;t_lod CONTQ=93.00;DP=10857 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5517,0,0:0.00,0.00:5517:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.736e+00,-3.736e+00 ././.:5279,9,0:2.172e-04,1.883e-04:5288:base_quality;t_lod:28,8,0:329,413,0:60,60,0:43,0:0.010,0.010,1.702e-03:3.036e-03,8.323e-05,0.997:-3.363e+00,-3.424e+00 -MT 9102 . C T, . base_quality;t_lod CONTQ=93.00;DP=10815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5517,0,0:0.00,0.00:5517:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.736e+00,-3.736e+00 ././.:5263,1,0:1.891e-04,1.889e-04:5264:base_quality;t_lod:28,10,0:330,232,0:60,60,0:54,0:0.010,0.00,1.900e-04:5.364e-05,2.157e-04,1.000:-3.422e+00,-3.423e+00 +MT 9098 . T G, . base_quality;t_lod CONTQ=93.00;DP=11179 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5694,0,0:0.00,0.00:5694:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.732e+00,-3.732e+00 ././.:5400,12,0:1.910e-04,1.840e-04:5412:base_quality;t_lod:28,7,0:329,435,0:60,60,0:35,0:-3.418e+00,-3.434e+00 +MT 9099 . C A, . base_quality;t_lod CONTQ=93.00;DP=11127 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5602,8,0:1.867e-04,1.775e-04:5610:base_quality;t_lod:28,12,0:333,348,0:60,60,0:25,0:-3.428e+00,-3.450e+00 ./.:5454,0,0:0.00,0.00:5454:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.722e+00,-3.722e+00 +MT 9100 . A C, . base_quality;t_lod CONTQ=93.00;DP=11087 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5525,30,0:1.986e-04,1.796e-04:5555:base_quality;t_lod:29,8,0:332,384,0:60,60,0:43,0:-3.402e+00,-3.445e+00 ./.:5454,0,0:0.00,0.00:5454:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.722e+00,-3.722e+00 +MT 9101 . T G, . base_quality;t_lod CONTQ=93.00;DP=10857 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5517,0,0:0.00,0.00:5517:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.736e+00,-3.736e+00 ././.:5279,9,0:2.172e-04,1.883e-04:5288:base_quality;t_lod:28,8,0:329,413,0:60,60,0:43,0:-3.363e+00,-3.424e+00 +MT 9102 . C T, . base_quality;t_lod CONTQ=93.00;DP=10815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5517,0,0:0.00,0.00:5517:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.736e+00,-3.736e+00 ././.:5263,1,0:1.891e-04,1.889e-04:5264:base_quality;t_lod:28,10,0:330,232,0:60,60,0:54,0:-3.422e+00,-3.423e+00 MT 9103 . T . . . GT:DP:MIN_DP:TLOD ./.:5517:5469:-3.736e+00 ./.:5303:5303:-3.712e+00 -MT 9104 . T A, . base_quality;t_lod CONTQ=93.00;DP=10930 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5482,1,0:1.812e-04,1.810e-04:5483:base_quality;t_lod:28,11,0:332,464,0:60,60,0:46,0:0.010,0.00,1.824e-04:5.311e-05,1.933e-04,1.000:-3.441e+00,-3.441e+00 ././.:5171,3,0:1.914e-04,1.909e-04:5174:base_quality;t_lod:28,11,0:330,339,0:60,57,0:30,0:0.010,0.010,5.798e-04:8.540e-05,2.810e-04,1.000:-3.417e+00,-3.418e+00 +MT 9104 . T A, . base_quality;t_lod CONTQ=93.00;DP=10930 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5482,1,0:1.812e-04,1.810e-04:5483:base_quality;t_lod:28,11,0:332,464,0:60,60,0:46,0:-3.441e+00,-3.441e+00 ././.:5171,3,0:1.914e-04,1.909e-04:5174:base_quality;t_lod:28,11,0:330,339,0:60,57,0:30,0:-3.417e+00,-3.418e+00 MT 9105 . C . . . GT:DP:MIN_DP:TLOD ./.:5433:5433:-3.687e+00 ./.:5276:5276:-3.719e+00 -MT 9106 . A T,C, . base_quality;t_lod CONTQ=93.00;DP=10934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:5379,2,17,0:2.220e-04,3.192e-04,1.833e-04:5398:base_quality;t_lod:29,20,8,0:331,273,439,0:60,54,60,0:24,28,0:0.010,0.010,3.150e-03:3.952e-04,2.306e-04,0.999:-3.171e+00,-3.007e+00,-3.260e+00 ././.:5167,5,0,0:1.916e-04,1.908e-04,1.908e-04:5172:base_quality;t_lod:29,14,0,0:329,421,0,0:60,60,0,0:39,0,0:0.010,0.010,9.667e-04:1.137e-04,3.454e-04,1.000:-3.417e+00,-3.418e+00,-3.418e+00 +MT 9106 . A T,C, . base_quality;t_lod CONTQ=93.00;DP=10934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:5379,2,17,0:2.220e-04,3.192e-04,1.833e-04:5398:base_quality;t_lod:29,20,8,0:331,273,439,0:60,54,60,0:24,28,0:-3.171e+00,-3.007e+00,-3.260e+00 ././.:5167,5,0,0:1.916e-04,1.908e-04,1.908e-04:5172:base_quality;t_lod:29,14,0,0:329,421,0,0:60,60,0,0:39,0,0:-3.417e+00,-3.418e+00,-3.418e+00 MT 9107 . C . . END=9110 GT:DP:MIN_DP:TLOD ./.:5841:5816:-3.761e+00 ./.:5263:5249:-3.719e+00 -MT 9111 . T C, . base_quality;t_lod CONTQ=93.00;DP=11176 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5841,0,0:0.00,0.00:5841:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.761e+00,-3.761e+00 ././.:5265,10,0:1.900e-04,1.885e-04:5275:base_quality;t_lod:28,8,0:329,410,0:60,60,0:10,0:0.00,0.010,1.896e-03:0.039,6.450e-05,0.960:-3.420e+00,-3.424e+00 +MT 9111 . T C, . base_quality;t_lod CONTQ=93.00;DP=11176 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5841,0,0:0.00,0.00:5841:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.761e+00,-3.761e+00 ././.:5265,10,0:1.900e-04,1.885e-04:5275:base_quality;t_lod:28,8,0:329,410,0:60,60,0:10,0:-3.420e+00,-3.424e+00 MT 9112 . C . . END=9113 GT:DP:MIN_DP:TLOD ./.:5841:5816:-3.761e+00 ./.:5829:5826:-3.759e+00 MT 9114 . A . . END=9115 GT:DP:MIN_DP:TLOD ./.:5830:5815:-3.418e+00 ./.:5807:5790:-3.484e+00 MT 9116 . T . . END=9119 GT:DP:MIN_DP:TLOD ./.:5820:5807:-3.745e+00 ./.:5792:5766:-3.753e+00 @@ -5758,58 +5754,58 @@ MT 9494 . A . . . GT:DP:MIN_DP:TLOD ./.:5640:5640:-2.467e+00 ./.:5646: MT 9495 . T . . . GT:DP:MIN_DP:TLOD ./.:5713:5713:-3.579e+00 ./.:5709:5709:-3.678e+00 MT 9496 . T . . . GT:DP:MIN_DP:TLOD ./.:5775:5775:-3.383e+00 ./.:5766:5766:-3.340e+00 MT 9497 . T . . END=9502 GT:DP:MIN_DP:TLOD ./.:5970:5834:-3.764e+00 ./.:5938:5826:-3.761e+00 -MT 9503 . A C, . base_quality;t_lod CONTQ=93.00;DP=11186 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5970,0,0:0.00,0.00:5970:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.764e+00,-3.764e+00 ././.:5234,27,0:2.421e-04,1.896e-04:5261:base_quality;t_lod:28,4,0:336,371,0:60,60,0:31,0:0.010,0.010,5.132e-03:8.012e-05,0.120,0.880:-3.320e+00,-3.421e+00 -MT 9504 . G T, . base_quality;t_lod CONTQ=93.00;DP=11505 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6114,0,0:0.00,0.00:6114:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.211e+00,-3.211e+00 ././.:5300,6,0:1.886e-04,1.876e-04:5306:base_quality;t_lod:28,12,0:337,444,0:60,60,0:30,0:0.010,0.010,1.131e-03:3.470e-04,1.296e-04,1.000:-3.424e+00,-3.426e+00 +MT 9503 . A C, . base_quality;t_lod CONTQ=93.00;DP=11186 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5970,0,0:0.00,0.00:5970:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.764e+00,-3.764e+00 ././.:5234,27,0:2.421e-04,1.896e-04:5261:base_quality;t_lod:28,4,0:336,371,0:60,60,0:31,0:-3.320e+00,-3.421e+00 +MT 9504 . G T, . base_quality;t_lod CONTQ=93.00;DP=11505 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6114,0,0:0.00,0.00:6114:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.211e+00,-3.211e+00 ././.:5300,6,0:1.886e-04,1.876e-04:5306:base_quality;t_lod:28,12,0:337,444,0:60,60,0:30,0:-3.424e+00,-3.426e+00 MT 9505 . C . . . GT:DP:MIN_DP:TLOD ./.:6307:6166:-3.739e+00 ./.:5402:5402:-3.731e+00 -MT 9506 . C A, . base_quality;t_lod CONTQ=93.00;DP=11635 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6307,0,0:0.00,0.00:6307:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.739e+00,-3.739e+00 ././.:5384,2,0:1.850e-04,1.847e-04:5386:base_quality;t_lod:28,11,0:338,327,0:60,60,0:50,0:0.010,0.00,3.713e-04:5.559e-05,4.923e-04,0.999:-3.432e+00,-3.432e+00 +MT 9506 . C A, . base_quality;t_lod CONTQ=93.00;DP=11635 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6307,0,0:0.00,0.00:6307:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.739e+00,-3.739e+00 ././.:5384,2,0:1.850e-04,1.847e-04:5386:base_quality;t_lod:28,11,0:338,327,0:60,60,0:50,0:-3.432e+00,-3.432e+00 MT 9507 . T . . END=9509 GT:DP:MIN_DP:TLOD ./.:6307:6166:-3.739e+00 ./.:5521:5488:-3.675e+00 MT 9510 . T . . . GT:DP:MIN_DP:TLOD ./.:6307:6166:-3.739e+00 ./.:5586:5586:-3.464e+00 MT 9511 . A . . . GT:DP:MIN_DP:TLOD ./.:6428:6428:-3.418e+00 ./.:5678:5626:-3.752e+00 MT 9512 . C . . END=9513 GT:DP:MIN_DP:TLOD ./.:6505:6468:-3.689e+00 ./.:5678:5626:-3.752e+00 -MT 9514 . A C, . base_quality;t_lod CONTQ=93.00;DP=12309 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6536,0,0:0.00,0.00:6536:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.181e-01,-1.181e-01 ././.:5571,108,0:1.568e-03,1.776e-04:5679:base_quality;t_lod:28,8,0:339,322,0:60,60,0:19,0:0.020,0.010,0.019:0.00,1.00,1.922e-20:-1.487e+00,-3.450e+00 -MT 9515 . C A, . t_lod CONTQ=93.00;DP=12443 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:6817,0,0:0.00,0.00:6817:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 .|.|.:5810,2,0:3.247e-04,1.720e-04:5812:t_lod:28,20,0:339,480,0:60,60,0:21,0:0|1:9515_C_A:9515:0.010,0.010,3.441e-04:1.063e-04,1.259e-04,1.000:-2.676e+00,-3.463e+00 +MT 9514 . A C, . base_quality;t_lod CONTQ=93.00;DP=12309 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6536,0,0:0.00,0.00:6536:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.181e-01,-1.181e-01 ././.:5571,108,0:1.568e-03,1.776e-04:5679:base_quality;t_lod:28,8,0:339,322,0:60,60,0:19,0:-1.487e+00,-3.450e+00 +MT 9515 . C A, . t_lod CONTQ=93.00;DP=12443 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:6817,0,0:0.00,0.00:6817:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.831e+00,-3.831e+00 .|.|.:5810,2,0:3.247e-04,1.720e-04:5812:t_lod:28,20,0:339,480,0:60,60,0:21,0:0|1:9515_C_A:9515:-2.676e+00,-3.463e+00 MT 9516 . T . . END=9520 GT:DP:MIN_DP:TLOD ./.:6817:6631:-3.831e+00 ./.:5965:5829:-3.733e+00 -MT 9521 . C A, . base_quality;t_lod CONTQ=93.00;DP=12689 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6817,0,0:0.00,0.00:6817:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 ././.:5962,6,0:1.735e-04,1.667e-04:5968:base_quality;t_lod:28,12,0:339,416,0:60,60,0:33,0:0.010,0.010,1.005e-03:9.685e-05,4.280e-04,0.999:-3.460e+00,-3.477e+00 +MT 9521 . C A, . base_quality;t_lod CONTQ=93.00;DP=12689 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6817,0,0:0.00,0.00:6817:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.831e+00,-3.831e+00 ././.:5962,6,0:1.735e-04,1.667e-04:5968:base_quality;t_lod:28,12,0:339,416,0:60,60,0:33,0:-3.460e+00,-3.477e+00 MT 9522 . C . . END=9523 GT:DP:MIN_DP:TLOD ./.:6817:6631:-3.831e+00 ./.:6140:6097:-3.783e+00 MT 9524 . A . . . GT:DP:MIN_DP:TLOD ./.:6967:6938:-3.400e+00 ./.:6140:6097:-3.783e+00 -MT 9525 . G T, . base_quality;t_lod CONTQ=93.00;DP=13155 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6967,0,0:0.00,0.00:6967:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.400e+00,-3.400e+00 ././.:6106,12,0:1.645e-04,1.631e-04:6118:base_quality;t_lod:28,12,0:339,414,0:60,60,0:24,0:0.010,0.010,1.961e-03:1.225e-03,9.691e-05,0.999:-3.483e+00,-3.487e+00 +MT 9525 . G T, . base_quality;t_lod CONTQ=93.00;DP=13155 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6967,0,0:0.00,0.00:6967:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.400e+00,-3.400e+00 ././.:6106,12,0:1.645e-04,1.631e-04:6118:base_quality;t_lod:28,12,0:339,414,0:60,60,0:24,0:-3.483e+00,-3.487e+00 MT 9526 . C . . END=9529 GT:DP:MIN_DP:TLOD ./.:7193:7120:-3.845e+00 ./.:6350:6280:-3.797e+00 -MT 9530 . T A, . base_quality;t_lod CONTQ=93.00;DP=13555 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7193,0,0:0.00,0.00:7193:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.845e+00,-3.845e+00 .|.|.:6336,2,0:2.955e-04,1.569e-04:6338:base_quality;t_lod:28,18,0:339,480,0:60,60,0:25,0:0|1:9515_C_A:9515:0.010,0.010,3.156e-04:9.885e-05,1.190e-04,1.000:-2.748e+00,-3.503e+00 -MT 9531 . AC A, . t_lod CONTQ=93.00;DP=13458 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6982,0,0:0.00,0.00:6982:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.776e+00,-1.776e+00 ././.:6020,1,0:1.861e-04,1.610e-04:6021:t_lod:28,28,0:339,258,0:60,60,0:11,0:0.010,0.00,1.661e-04:4.910e-05,1.682e-04,1.000:-3.428e+00,-3.492e+00 -MT 9532 . C *, . t_lod DP=13627 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7203,0,0:0.00,0.00:7203:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.823e+00,-3.823e+00 ././.:6020,0,0:1.610e-04,1.610e-04:6021:t_lod:28,0,0:339,0,0:60,0,0:0,0:0.010,0.00,1.661e-04:4.910e-05,1.682e-04,1.000:-3.492e+00,-3.492e+00 +MT 9530 . T A, . base_quality;t_lod CONTQ=93.00;DP=13555 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7193,0,0:0.00,0.00:7193:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.845e+00,-3.845e+00 .|.|.:6336,2,0:2.955e-04,1.569e-04:6338:base_quality;t_lod:28,18,0:339,480,0:60,60,0:25,0:0|1:9515_C_A:9515:-2.748e+00,-3.503e+00 +MT 9531 . AC A, . t_lod CONTQ=93.00;DP=13458 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6982,0,0:0.00,0.00:6982:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.776e+00,-1.776e+00 ././.:6020,1,0:1.861e-04,1.610e-04:6021:t_lod:28,28,0:339,258,0:60,60,0:11,0:-3.428e+00,-3.492e+00 +MT 9532 . C *, . t_lod DP=13627 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7203,0,0:0.00,0.00:7203:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.823e+00,-3.823e+00 ././.:6020,0,0:1.610e-04,1.610e-04:6021:t_lod:28,0,0:339,0,0:60,0,0:0,0:-3.492e+00,-3.492e+00 MT 9533 . C . . END=9534 GT:DP:MIN_DP:TLOD ./.:7203:7151:-3.823e+00 ./.:6372:6362:-3.796e+00 -MT 9535 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=13583 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7203,0,0:0.00,0.00:7203:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.823e+00,-3.823e+00 ././.:6225,0,0:1.586e-04,1.586e-04:6225:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:0.00,0.00,0.00:4.771e-05,5.392e-05,1.000:-3.499e+00,-3.499e+00 +MT 9535 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=13583 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7203,0,0:0.00,0.00:7203:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.823e+00,-3.823e+00 ././.:6225,0,0:1.586e-04,1.586e-04:6225:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:-3.499e+00,-3.499e+00 MT 9536 . C . . . GT:DP:MIN_DP:TLOD ./.:7203:7151:-3.823e+00 ./.:6349:6349:-3.797e+00 -MT 9537 . C A, . base_quality;t_lod CONTQ=93.00;DP=13591 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7203,0,0:0.00,0.00:7203:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.823e+00,-3.823e+00 ././.:6233,10,0:1.689e-04,1.585e-04:6243:base_quality;t_lod:28,14,0:339,283,0:60,60,0:32,0:0.010,0.010,1.602e-03:5.665e-04,1.032e-04,0.999:-3.471e+00,-3.499e+00 +MT 9537 . C A, . base_quality;t_lod CONTQ=93.00;DP=13591 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7203,0,0:0.00,0.00:7203:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.823e+00,-3.823e+00 ././.:6233,10,0:1.689e-04,1.585e-04:6243:base_quality;t_lod:28,14,0:339,283,0:60,60,0:32,0:-3.471e+00,-3.499e+00 MT 9538 . A . . . GT:DP:MIN_DP:TLOD ./.:7084:7084:-3.209e+00 ./.:6257:6250:-3.705e+00 MT 9539 . A . . . GT:DP:MIN_DP:TLOD ./.:7046:7046:-3.680e+00 ./.:6257:6250:-3.705e+00 -MT 9540 . T C, . PASS CONTQ=93.00;DP=13417 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7013,0,0:0.00,0.00:7013:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.479e+00,-2.479e+00 ././.:24,6216,0:0.997,1.590e-04:6240:26,28,0:336,339,0:60,60,0:36,0:0.990,0.990,0.996:0.017,0.033,0.950:19328.71,-3.497e+00 +MT 9540 . T C, . PASS CONTQ=93.00;DP=13417 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7013,0,0:0.00,0.00:7013:.,.,.:.,.,.:.,.,.:.,.:-2.479e+00,-2.479e+00 ././.:24,6216,0:0.997,1.590e-04:6240:26,28,0:336,339,0:60,60,0:36,0:19328.71,-3.497e+00 MT 9541 . T . . . GT:DP:MIN_DP:TLOD ./.:7027:7027:-3.377e+00 ./.:6227:6227:-3.472e+00 MT 9542 . A . . . GT:DP:MIN_DP:TLOD ./.:6962:6962:-3.548e+00 ./.:6185:6170:-3.763e+00 MT 9543 . G . . . GT:DP:MIN_DP:TLOD ./.:6913:6912:-3.469e+00 ./.:6185:6170:-3.763e+00 -MT 9544 . G T, . base_quality;t_lod CONTQ=93.00;DP=13286 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6913,0,0:0.00,0.00:6913:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.469e+00,-3.469e+00 ././.:6171,12,0:1.677e-04,1.606e-04:6183:base_quality;t_lod:28,12,0:340,369,0:60,60,0:36,0:0.010,0.010,1.941e-03:3.876e-03,7.606e-05,0.996:-3.475e+00,-3.493e+00 +MT 9544 . G T, . base_quality;t_lod CONTQ=93.00;DP=13286 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6913,0,0:0.00,0.00:6913:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.469e+00,-3.469e+00 ././.:6171,12,0:1.677e-04,1.606e-04:6183:base_quality;t_lod:28,12,0:340,369,0:60,60,0:36,0:-3.475e+00,-3.493e+00 MT 9545 . A . . END=9546 GT:DP:MIN_DP:TLOD ./.:6979:6961:-3.699e+00 ./.:6183:6180:-3.773e+00 -MT 9547 . G T, . base_quality;t_lod CONTQ=93.00;DP=13266 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6997,0,0:0.00,0.00:6997:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.126e+00,-3.126e+00 ././.:6158,8,0:1.634e-04,1.618e-04:6166:base_quality;t_lod:28,13,0:340,411,0:60,60,0:26,0:0.010,0.010,1.297e-03:7.531e-04,8.980e-05,0.999:-3.486e+00,-3.490e+00 -MT 9548 . G T, . base_quality;t_lod CONTQ=93.00;DP=12994 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6835,0,0:0.00,0.00:6835:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.808e+00,-3.808e+00 ././.:6121,6,0:1.694e-04,1.629e-04:6127:base_quality;t_lod:28,11,0:340,300,0:60,60,0:28,0:0.010,0.010,9.793e-04:3.043e-04,1.111e-04,1.000:-3.470e+00,-3.487e+00 +MT 9547 . G T, . base_quality;t_lod CONTQ=93.00;DP=13266 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6997,0,0:0.00,0.00:6997:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.126e+00,-3.126e+00 ././.:6158,8,0:1.634e-04,1.618e-04:6166:base_quality;t_lod:28,13,0:340,411,0:60,60,0:26,0:-3.486e+00,-3.490e+00 +MT 9548 . G T, . base_quality;t_lod CONTQ=93.00;DP=12994 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6835,0,0:0.00,0.00:6835:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.808e+00,-3.808e+00 ././.:6121,6,0:1.694e-04,1.629e-04:6127:base_quality;t_lod:28,11,0:340,300,0:60,60,0:28,0:-3.470e+00,-3.487e+00 MT 9549 . C . . END=9552 GT:DP:MIN_DP:TLOD ./.:6835:6763:-3.808e+00 ./.:6038:5956:-3.785e+00 MT 9553 . G . . . GT:DP:MIN_DP:TLOD ./.:6628:6600:-3.467e+00 ./.:6038:5956:-3.785e+00 MT 9554 . G . . . GT:DP:MIN_DP:TLOD ./.:6628:6600:-3.467e+00 ./.:5886:5886:-3.485e+00 MT 9555 . C . . . GT:DP:MIN_DP:TLOD ./.:6733:6733:-3.683e+00 ./.:5940:5940:-3.757e+00 MT 9556 . C . . . GT:DP:MIN_DP:TLOD ./.:6706:6706:-3.188e+00 ./.:5903:5903:-3.181e+00 -MT 9557 . C A, . base_quality;t_lod CONTQ=93.00;DP=12311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6596,0,0:0.00,0.00:6596:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.798e+00,-3.798e+00 ././.:5774,3,0:1.939e-04,1.723e-04:5777:base_quality;t_lod:28,15,0:341,280,0:60,60,0:38,0:0.010,0.010,5.193e-04:1.786e-04,9.503e-05,1.000:-3.410e+00,-3.463e+00 -MT 9558 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12273 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6596,0,0:0.00,0.00:6596:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.798e+00,-3.798e+00 ././.:5826,0,0:1.716e-04,1.716e-04:5826:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:0.00,0.00,0.00:5.148e-05,5.697e-05,1.000:-3.465e+00,-3.465e+00 +MT 9557 . C A, . base_quality;t_lod CONTQ=93.00;DP=12311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6596,0,0:0.00,0.00:6596:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.798e+00,-3.798e+00 ././.:5774,3,0:1.939e-04,1.723e-04:5777:base_quality;t_lod:28,15,0:341,280,0:60,60,0:38,0:-3.410e+00,-3.463e+00 +MT 9558 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12273 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6596,0,0:0.00,0.00:6596:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.798e+00,-3.798e+00 ././.:5826,0,0:1.716e-04,1.716e-04:5826:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:-3.465e+00,-3.465e+00 MT 9559 . C . . . GT:DP:MIN_DP:TLOD ./.:6596:6443:-3.798e+00 ./.:5814:5814:-3.675e+00 MT 9560 . A . . . GT:DP:MIN_DP:TLOD ./.:6596:6443:-3.798e+00 ./.:5762:5762:-3.376e+00 MT 9561 . A . . END=9562 GT:DP:MIN_DP:TLOD ./.:6596:6443:-3.798e+00 ./.:5683:5614:-3.747e+00 MT 9563 . A . . . GT:DP:MIN_DP:TLOD ./.:6283:6188:-3.448e+00 ./.:5683:5614:-3.747e+00 -MT 9564 . G T, . base_quality;t_lod CONTQ=93.00;DP=11775 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6283,0,0:0.00,0.00:6283:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.448e+00,-3.448e+00 ././.:5471,6,0:1.829e-04,1.819e-04:5477:base_quality;t_lod:28,12,0:340,410,0:60,60,0:21,0:0.010,0.010,1.095e-03:9.671e-04,8.293e-05,0.999:-3.437e+00,-3.439e+00 +MT 9564 . G T, . base_quality;t_lod CONTQ=93.00;DP=11775 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6283,0,0:0.00,0.00:6283:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.448e+00,-3.448e+00 ././.:5471,6,0:1.829e-04,1.819e-04:5477:base_quality;t_lod:28,12,0:340,410,0:60,60,0:21,0:-3.437e+00,-3.439e+00 MT 9565 . G . . . GT:DP:MIN_DP:TLOD ./.:6283:6188:-3.448e+00 ./.:5502:5444:-3.716e+00 MT 9566 . C . . END=9567 GT:DP:MIN_DP:TLOD ./.:6208:6185:-3.716e+00 ./.:5502:5444:-3.716e+00 MT 9568 . T . . . GT:DP:MIN_DP:TLOD ./.:6131:6131:-2.989e+00 ./.:5405:5405:-3.319e+00 MT 9569 . C . . . GT:DP:MIN_DP:TLOD ./.:6118:6118:-3.779e+00 ./.:5341:5310:-3.719e+00 MT 9570 . A . . . GT:DP:MIN_DP:TLOD ./.:6028:6028:-1.976e+00 ./.:5341:5310:-3.719e+00 -MT 9571 . C A, . base_quality;t_lod CONTQ=93.00;DP=11299 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6000,0,0:0.00,0.00:6000:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.729e+00,-3.729e+00 ././.:5208,5,0:1.995e-04,1.908e-04:5213:base_quality;t_lod:28,13,0:340,296,0:60,60,0:37,0:0.010,0.010,9.591e-04:7.881e-05,8.751e-04,0.999:-3.399e+00,-3.418e+00 -MT 9572 . C A, . base_quality;t_lod CONTQ=93.00;DP=11250 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5995,0,0:0.00,0.00:5995:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.470e+00,-3.470e+00 ././.:5174,6,0:2.918e-04,1.922e-04:5180:base_quality;t_lod:29,18,0:341,320,0:60,60,0:29,0:0.010,0.010,1.158e-03:1.765e-04,2.352e-04,1.000:-3.227e+00,-3.415e+00 +MT 9571 . C A, . base_quality;t_lod CONTQ=93.00;DP=11299 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6000,0,0:0.00,0.00:6000:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.729e+00,-3.729e+00 ././.:5208,5,0:1.995e-04,1.908e-04:5213:base_quality;t_lod:28,13,0:340,296,0:60,60,0:37,0:-3.399e+00,-3.418e+00 +MT 9572 . C A, . base_quality;t_lod CONTQ=93.00;DP=11250 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5995,0,0:0.00,0.00:5995:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.470e+00,-3.470e+00 ././.:5174,6,0:2.918e-04,1.922e-04:5180:base_quality;t_lod:29,18,0:341,320,0:60,60,0:29,0:-3.227e+00,-3.415e+00 MT 9573 . C . . END=9574 GT:DP:MIN_DP:TLOD ./.:5578:5440:-3.765e+00 ./.:5942:5889:-3.725e+00 MT 9575 . G . . . GT:DP:MIN_DP:TLOD ./.:5578:5440:-3.765e+00 ./.:5457:5457:-3.349e+00 MT 9576 . C . . END=9583 GT:DP:MIN_DP:TLOD ./.:5578:5440:-3.765e+00 ./.:5603:5512:-3.688e+00 @@ -6198,54 +6194,54 @@ MT 10236 . A . . . GT:DP:MIN_DP:TLOD ./.:7085:7085:-2.624e+00 ./.:7114 MT 10237 . T . . . GT:DP:MIN_DP:TLOD ./.:7081:7081:-3.670e+00 ./.:7135:7135:-3.672e+00 MT 10238 . T . . . GT:DP:MIN_DP:TLOD ./.:7085:7083:-3.470e+00 ./.:7155:7155:-3.419e+00 MT 10239 . A . . END=10240 GT:DP:MIN_DP:TLOD ./.:7085:7083:-3.470e+00 ./.:7160:7136:-3.835e+00 -MT 10241 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=13761 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6459,3,5,0:1.857e-04,1.538e-04,1.533e-04:6467:base_quality;t_lod:28,19,12,0:338,376,394,0:60,60,60,0:39,36,0:0.010,0.010,4.643e-04:8.028e-05,1.814e-04,1.000:-3.251e+00,-3.336e+00,-3.337e+00 ./.:7160,0,0,0:0.00,0.00,0.00:7160:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.835e+00,-3.835e+00,-3.835e+00 +MT 10241 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=13761 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6459,3,5,0:1.857e-04,1.538e-04,1.533e-04:6467:base_quality;t_lod:28,19,12,0:338,376,394,0:60,60,60,0:39,36,0:-3.251e+00,-3.336e+00,-3.337e+00 ./.:7160,0,0,0:0.00,0.00,0.00:7160:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.835e+00,-3.835e+00,-3.835e+00 MT 10242 . T . . . GT:DP:MIN_DP:TLOD ./.:6515:6515:-3.697e+00 ./.:7160:7136:-3.835e+00 -MT 10243 . T G, . base_quality;t_lod CONTQ=93.00;DP=13775 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6449,14,0:1.590e-04,1.534e-04:6463:base_quality;t_lod:28,7,0:339,372,0:60,60,0:39,0:0.010,0.010,2.166e-03:6.491e-05,0.017,0.983:-3.498e+00,-3.513e+00 ./.:7160,0,0:0.00,0.00:7160:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.835e+00,-3.835e+00 +MT 10243 . T G, . base_quality;t_lod CONTQ=93.00;DP=13775 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6449,14,0:1.590e-04,1.534e-04:6463:base_quality;t_lod:28,7,0:339,372,0:60,60,0:39,0:-3.498e+00,-3.513e+00 ./.:7160,0,0:0.00,0.00:7160:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.835e+00,-3.835e+00 MT 10244 . C . . . GT:DP:MIN_DP:TLOD ./.:6514:6514:-3.715e+00 ./.:7160:7136:-3.835e+00 -MT 10245 . T G, . base_quality;t_lod CONTQ=93.00;DP=13773 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6451,14,0:1.552e-04,1.533e-04:6465:base_quality;t_lod:29,5,0:338,393,0:60,60,0:48,0:0.010,0.010,2.166e-03:9.702e-05,1.505e-03,0.998:-3.508e+00,-3.513e+00 ./.:7160,0,0:0.00,0.00:7160:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.835e+00,-3.835e+00 +MT 10245 . T G, . base_quality;t_lod CONTQ=93.00;DP=13773 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6451,14,0:1.552e-04,1.533e-04:6465:base_quality;t_lod:29,5,0:338,393,0:60,60,0:48,0:-3.508e+00,-3.513e+00 ./.:7160,0,0:0.00,0.00:7160:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.835e+00,-3.835e+00 MT 10246 . T . . . GT:DP:MIN_DP:TLOD ./.:6512:6512:-3.761e+00 ./.:7160:7136:-3.835e+00 -MT 10247 . A C, . base_quality;t_lod CONTQ=93.00;DP=13766 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6439,28,0:2.227e-04,1.536e-04:6467:base_quality;t_lod:29,7,0:338,379,0:60,60,0:47,0:0.010,0.010,4.330e-03:3.424e-04,3.663e-04,0.999:-3.348e+00,-3.513e+00 ./.:7125,0,0:0.00,0.00:7125:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.425e+00,-3.425e+00 +MT 10247 . A C, . base_quality;t_lod CONTQ=93.00;DP=13766 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6439,28,0:2.227e-04,1.536e-04:6467:base_quality;t_lod:29,7,0:338,379,0:60,60,0:47,0:-3.348e+00,-3.513e+00 ./.:7125,0,0:0.00,0.00:7125:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.425e+00,-3.425e+00 MT 10248 . T . . END=10251 GT:DP:MIN_DP:TLOD ./.:6520:6515:-3.813e+00 ./.:7144:7134:-3.779e+00 MT 10252 . T . . . GT:DP:MIN_DP:TLOD ./.:6516:6516:-3.408e+00 ./.:7144:7134:-3.779e+00 MT 10253 . T . . . GT:DP:MIN_DP:TLOD ./.:6505:6481:-3.808e+00 ./.:7144:7134:-3.779e+00 MT 10254 . G . . . GT:DP:MIN_DP:TLOD ./.:6505:6481:-3.808e+00 ./.:7106:7106:-3.387e+00 MT 10255 . A . . END=10259 GT:DP:MIN_DP:TLOD ./.:6505:6481:-3.808e+00 ./.:7125:7091:-3.781e+00 -MT 10260 . G T, . base_quality;t_lod CONTQ=93.00;DP=13745 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6469,13,0:3.416e-04,1.531e-04:6482:base_quality;t_lod:28,12,0:337,339,0:60,60,0:12,0:0.010,0.010,2.006e-03:7.990e-04,1.068e-04,0.999:-3.069e+00,-3.514e+00 ./.:7125,0,0:0.00,0.00:7125:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.781e+00,-3.781e+00 +MT 10260 . G T, . base_quality;t_lod CONTQ=93.00;DP=13745 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6469,13,0:3.416e-04,1.531e-04:6482:base_quality;t_lod:28,12,0:337,339,0:60,60,0:12,0:-3.069e+00,-3.514e+00 ./.:7125,0,0:0.00,0.00:7125:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.781e+00,-3.781e+00 MT 10261 . A . . . GT:DP:MIN_DP:TLOD ./.:6504:6500:-3.711e+00 ./.:7125:7091:-3.781e+00 MT 10262 . A . . . GT:DP:MIN_DP:TLOD ./.:6504:6500:-3.711e+00 ./.:7118:7118:-2.133e+00 -MT 10263 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13666 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6437,32,8,0:1.770e-04,1.630e-04,1.534e-04:6477:base_quality;t_lod:29,7,12,0:336,349,403,0:60,60,60,0:18,34,0:0.010,0.010,4.947e-03:1.000e-04,0.010,0.989:-3.276e+00,-3.311e+00,-3.337e+00 ./.:7088,0,0,0:0.00,0.00,0.00:7088:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.667e+00,-3.667e+00,-3.667e+00 +MT 10263 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13666 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6437,32,8,0:1.770e-04,1.630e-04,1.534e-04:6477:base_quality;t_lod:29,7,12,0:336,349,403,0:60,60,60,0:18,34,0:-3.276e+00,-3.311e+00,-3.337e+00 ./.:7088,0,0,0:0.00,0.00,0.00:7088:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.667e+00,-3.667e+00,-3.667e+00 MT 10264 . T . . . GT:DP:MIN_DP:TLOD ./.:6489:6489:-3.809e+00 ./.:7088:7011:-3.667e+00 -MT 10265 . T G, . base_quality;t_lod CONTQ=93.00;DP=13668 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6462,14,0:1.546e-04,1.530e-04:6476:base_quality;t_lod:29,7,0:336,404,0:60,60,0:30,0:0.010,0.010,2.162e-03:3.196e-04,1.879e-04,0.999:-3.510e+00,-3.514e+00 ./.:7088,0,0:0.00,0.00:7088:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.667e+00,-3.667e+00 -MT 10266 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13676 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6459,3,19,0:1.534e-04,4.732e-04,1.531e-04:6481:base_quality;t_lod:28,2,12,0:336,706,367,0:60,60,60,0:10,30,0:0.00,0.010,2.933e-03:0.956,2.232e-06,0.044:-3.337e+00,-2.589e+00,-3.338e+00 ./.:7088,0,0,0:0.00,0.00,0.00:7088:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.667e+00,-3.667e+00,-3.667e+00 +MT 10265 . T G, . base_quality;t_lod CONTQ=93.00;DP=13668 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6462,14,0:1.546e-04,1.530e-04:6476:base_quality;t_lod:29,7,0:336,404,0:60,60,0:30,0:-3.510e+00,-3.514e+00 ./.:7088,0,0:0.00,0.00:7088:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.667e+00,-3.667e+00 +MT 10266 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13676 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6459,3,19,0:1.534e-04,4.732e-04,1.531e-04:6481:base_quality;t_lod:28,2,12,0:336,706,367,0:60,60,60,0:10,30,0:-3.337e+00,-2.589e+00,-3.338e+00 ./.:7088,0,0,0:0.00,0.00,0.00:7088:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.667e+00,-3.667e+00,-3.667e+00 MT 10267 . C . . . GT:DP:MIN_DP:TLOD ./.:6502:6480:-3.762e+00 ./.:7088:7011:-3.667e+00 MT 10268 . C . . . GT:DP:MIN_DP:TLOD ./.:6502:6480:-3.762e+00 ./.:7128:7128:-3.435e+00 -MT 10269 . C A, . base_quality;t_lod CONTQ=93.00;DP=13698 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6482,5,0:1.831e-04,1.527e-04:6487:base_quality;t_lod:28,14,0:336,424,0:60,60,0:61,0:0.010,0.010,7.708e-04:9.503e-05,2.154e-04,1.000:-3.435e+00,-3.515e+00 ./.:7147,0,0:0.00,0.00:7147:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.818e+00,-3.818e+00 +MT 10269 . C A, . base_quality;t_lod CONTQ=93.00;DP=13698 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6482,5,0:1.831e-04,1.527e-04:6487:base_quality;t_lod:28,14,0:336,424,0:60,60,0:61,0:-3.435e+00,-3.515e+00 ./.:7147,0,0:0.00,0.00:7147:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.818e+00,-3.818e+00 MT 10270 . T . . END=10271 GT:DP:MIN_DP:TLOD ./.:6513:6512:-3.810e+00 ./.:7147:7031:-3.818e+00 MT 10272 . C . . . GT:DP:MIN_DP:TLOD ./.:6492:6492:-3.464e+00 ./.:7147:7031:-3.818e+00 MT 10273 . T . . END=10282 GT:DP:MIN_DP:TLOD ./.:6519:6451:-3.807e+00 ./.:7147:7031:-3.818e+00 -MT 10283 . A C, . base_quality;t_lod CONTQ=93.00;DP=13812 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6438,48,0:2.883e-04,1.532e-04:6486:base_quality;t_lod:29,7,0:336,416,0:60,60,0:26,0:0.010,0.010,7.401e-03:3.054e-06,0.958,0.042:-3.187e+00,-3.514e+00 ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.974e+00,-2.974e+00 +MT 10283 . A C, . base_quality;t_lod CONTQ=93.00;DP=13812 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6438,48,0:2.883e-04,1.532e-04:6486:base_quality;t_lod:29,7,0:336,416,0:60,60,0:26,0:-3.187e+00,-3.514e+00 ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.974e+00,-2.974e+00 MT 10284 . C . . END=10285 GT:DP:MIN_DP:TLOD ./.:6476:6385:-3.808e+00 ./.:7149:7131:-3.842e+00 MT 10286 . A . . . GT:DP:MIN_DP:TLOD ./.:6476:6385:-3.808e+00 ./.:7133:7133:-3.217e+00 MT 10287 . T . . END=10289 GT:DP:MIN_DP:TLOD ./.:6476:6385:-3.808e+00 ./.:7056:6983:-3.818e+00 MT 10290 . G . . . GT:DP:MIN_DP:TLOD ./.:6476:6385:-3.808e+00 ./.:7028:7028:-3.023e+00 MT 10291 . C . . . GT:DP:MIN_DP:TLOD ./.:6476:6385:-3.808e+00 ./.:7137:7114:-3.753e+00 -MT 10292 . C A, . base_quality;t_lod CONTQ=93.00;DP=13795 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6504,6,0:1.529e-04,1.522e-04:6510:base_quality;t_lod:28,13,0:337,408,0:60,60,0:23,0:0.010,0.010,9.217e-04:2.650e-04,1.074e-04,1.000:-3.515e+00,-3.516e+00 ./.:7137,0,0:0.00,0.00:7137:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.753e+00,-3.753e+00 -MT 10293 . C T, . base_quality;t_lod CONTQ=93.00;DP=13806 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6507,4,0:1.527e-04,1.523e-04:6511:base_quality;t_lod:28,14,0:337,282,0:60,60,0:25,0:0.00,0.010,6.143e-04:1.088e-03,5.157e-05,0.999:-3.515e+00,-3.516e+00 ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.393e+00,-3.393e+00 +MT 10292 . C A, . base_quality;t_lod CONTQ=93.00;DP=13795 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6504,6,0:1.529e-04,1.522e-04:6510:base_quality;t_lod:28,13,0:337,408,0:60,60,0:23,0:-3.515e+00,-3.516e+00 ./.:7137,0,0:0.00,0.00:7137:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.753e+00,-3.753e+00 +MT 10293 . C T, . base_quality;t_lod CONTQ=93.00;DP=13806 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6507,4,0:1.527e-04,1.523e-04:6511:base_quality;t_lod:28,14,0:337,282,0:60,60,0:25,0:-3.515e+00,-3.516e+00 ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.393e+00,-3.393e+00 MT 10294 . T . . END=10297 GT:DP:MIN_DP:TLOD ./.:6521:6516:-3.798e+00 ./.:7124:7089:-3.833e+00 MT 10298 . A . . . GT:DP:MIN_DP:TLOD ./.:6513:6513:-3.481e+00 ./.:7124:7089:-3.833e+00 -MT 10299 . A C, . base_quality;t_lod CONTQ=93.00;DP=13750 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6570,5,0:1.519e-04,1.514e-04:6575:base_quality;t_lod:28,8,0:337,425,0:60,60,0:7,0:0.010,0.010,7.605e-04:6.157e-05,6.318e-04,0.999:-3.518e+00,-3.519e+00 ./.:7124,0,0:0.00,0.00:7124:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.833e+00,-3.833e+00 +MT 10299 . A C, . base_quality;t_lod CONTQ=93.00;DP=13750 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6570,5,0:1.519e-04,1.514e-04:6575:base_quality;t_lod:28,8,0:337,425,0:60,60,0:7,0:-3.518e+00,-3.519e+00 ./.:7124,0,0:0.00,0.00:7124:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.833e+00,-3.833e+00 MT 10300 . C . . END=10301 GT:DP:MIN_DP:TLOD ./.:6481:6477:-3.808e+00 ./.:7124:7089:-3.833e+00 -MT 10302 . A T, . base_quality;t_lod CONTQ=93.00;DP=13732 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6430,4,0:1.821e-04,1.540e-04:6434:base_quality;t_lod:28,14,0:337,419,0:60,60,0:46,0:0.010,0.00,6.217e-04:4.577e-05,1.898e-03,0.998:-3.436e+00,-3.512e+00 ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.087e+00,-2.087e+00 +MT 10302 . A T, . base_quality;t_lod CONTQ=93.00;DP=13732 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6430,4,0:1.821e-04,1.540e-04:6434:base_quality;t_lod:28,14,0:337,419,0:60,60,0:46,0:-3.436e+00,-3.512e+00 ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.087e+00,-2.087e+00 MT 10303 . C . . END=10304 GT:DP:MIN_DP:TLOD ./.:6452:6448:-3.799e+00 ./.:7090:7080:-3.811e+00 -MT 10305 . A C, . base_quality;t_lod CONTQ=93.00;DP=13695 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6416,33,0:1.821e-04,1.544e-04:6449:base_quality;t_lod:29,8,0:337,384,0:60,60,0:21,0:0.010,0.010,5.117e-03:9.176e-05,0.021,0.979:-3.438e+00,-3.510e+00 ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.811e+00,-3.811e+00 +MT 10305 . A C, . base_quality;t_lod CONTQ=93.00;DP=13695 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6416,33,0:1.821e-04,1.544e-04:6449:base_quality;t_lod:29,8,0:337,384,0:60,60,0:21,0:-3.438e+00,-3.510e+00 ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.811e+00,-3.811e+00 MT 10306 . A . . . GT:DP:MIN_DP:TLOD ./.:6450:6369:-3.806e+00 ./.:6983:6983:-2.101e+00 MT 10307 . C . . END=10318 GT:DP:MIN_DP:TLOD ./.:6450:6369:-3.806e+00 ./.:7151:7060:-3.809e+00 -MT 10319 . A C, . base_quality;t_lod CONTQ=93.00;DP=13629 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6382,16,0:1.594e-04,1.551e-04:6398:base_quality;t_lod:29,7,0:337,449,0:60,60,0:34,0:0.010,0.010,2.501e-03:4.862e-04,1.745e-04,0.999:-3.497e+00,-3.508e+00 ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.809e+00,-3.809e+00 -MT 10320 . G T, . base_quality;t_lod CONTQ=93.00;DP=13630 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6381,10,0:1.563e-04,1.552e-04:6391:base_quality;t_lod:28,6,0:338,329,0:60,60,0:25,0:0.010,0.010,1.565e-03:5.016e-03,6.464e-05,0.995:-3.505e+00,-3.508e+00 ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.809e+00,-3.809e+00 +MT 10319 . A C, . base_quality;t_lod CONTQ=93.00;DP=13629 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6382,16,0:1.594e-04,1.551e-04:6398:base_quality;t_lod:29,7,0:337,449,0:60,60,0:34,0:-3.497e+00,-3.508e+00 ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.809e+00,-3.809e+00 +MT 10320 . G T, . base_quality;t_lod CONTQ=93.00;DP=13630 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6381,10,0:1.563e-04,1.552e-04:6391:base_quality;t_lod:28,6,0:338,329,0:60,60,0:25,0:-3.505e+00,-3.508e+00 ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.809e+00,-3.809e+00 MT 10321 . T . . END=10322 GT:DP:MIN_DP:TLOD ./.:6429:6428:-3.797e+00 ./.:7151:7060:-3.809e+00 MT 10323 . A . . . GT:DP:MIN_DP:TLOD ./.:6429:6428:-3.797e+00 ./.:7168:7168:-3.394e+00 MT 10324 . T . . . GT:DP:MIN_DP:TLOD ./.:6429:6428:-3.797e+00 ./.:7163:7128:-3.824e+00 -MT 10325 . G T, . base_quality;t_lod CONTQ=93.00;DP=13682 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6361,18,0:2.139e-04,1.555e-04:6379:base_quality;t_lod:28,11,0:338,389,0:60,60,0:23,0:0.010,0.010,2.822e-03:0.276,4.393e-05,0.724:-3.364e+00,-3.507e+00 ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.824e+00,-3.824e+00 +MT 10325 . G T, . base_quality;t_lod CONTQ=93.00;DP=13682 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6361,18,0:2.139e-04,1.555e-04:6379:base_quality;t_lod:28,11,0:338,389,0:60,60,0:23,0:-3.364e+00,-3.507e+00 ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.824e+00,-3.824e+00 MT 10326 . T . . END=10331 GT:DP:MIN_DP:TLOD ./.:7149:7125:-3.834e+00 ./.:7163:7128:-3.824e+00 MT 10332 . C . . . GT:DP:MIN_DP:TLOD ./.:7149:7125:-3.834e+00 ./.:7145:7132:-3.370e+00 MT 10333 . T . . . GT:DP:MIN_DP:TLOD ./.:7146:7146:-3.217e+00 ./.:7145:7132:-3.370e+00 @@ -6261,49 +6257,49 @@ MT 10356 . C . . END=10358 GT:DP:MIN_DP:TLOD ./.:7123:7082:-3.779e+00 MT 10359 . A . . . GT:DP:MIN_DP:TLOD ./.:7011:6969:-3.194e+00 ./.:7145:7111:-3.834e+00 MT 10360 . G . . . GT:DP:MIN_DP:TLOD ./.:7011:6969:-3.194e+00 ./.:7074:7032:-3.459e+00 MT 10361 . T . . . GT:DP:MIN_DP:TLOD ./.:7060:7044:-3.832e+00 ./.:7074:7032:-3.459e+00 -MT 10362 . C A, . base_quality;t_lod CONTQ=93.00;DP=13610 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7060,0,0:0.00,0.00:7060:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:6379,7,0:3.276e-04,1.552e-04:6386:base_quality;t_lod:28,13,0:341,330,0:60,60,0:42,0:0.010,0.010,1.096e-03:1.022e-04,4.275e-04,0.999:-3.123e+00,-3.508e+00 +MT 10362 . C A, . base_quality;t_lod CONTQ=93.00;DP=13610 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7060,0,0:0.00,0.00:7060:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:6379,7,0:3.276e-04,1.552e-04:6386:base_quality;t_lod:28,13,0:341,330,0:60,60,0:42,0:-3.123e+00,-3.508e+00 MT 10363 . T . . . GT:DP:MIN_DP:TLOD ./.:7060:7044:-3.832e+00 ./.:6522:6488:-3.813e+00 MT 10364 . G . . END=10365 GT:DP:MIN_DP:TLOD ./.:7041:7007:-3.382e+00 ./.:6522:6488:-3.813e+00 MT 10366 . C . . . GT:DP:MIN_DP:TLOD ./.:7080:6980:-3.798e+00 ./.:6522:6488:-3.813e+00 -MT 10367 . C A, . base_quality;t_lod CONTQ=93.00;DP=13531 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.798e+00,-3.798e+00 ././.:6366,12,0:2.658e-04,1.555e-04:6378:base_quality;t_lod:28,12,0:341,336,0:60,60,0:28,0:0.010,0.010,1.881e-03:6.183e-05,0.015,0.985:-3.242e+00,-3.507e+00 +MT 10367 . C A, . base_quality;t_lod CONTQ=93.00;DP=13531 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.798e+00,-3.798e+00 ././.:6366,12,0:2.658e-04,1.555e-04:6378:base_quality;t_lod:28,12,0:341,336,0:60,60,0:28,0:-3.242e+00,-3.507e+00 MT 10368 . T . . END=10370 GT:DP:MIN_DP:TLOD ./.:7080:6980:-3.798e+00 ./.:6543:6542:-3.813e+00 -MT 10371 . G T, . base_quality;t_lod CONTQ=93.00;DP=13554 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.798e+00,-3.798e+00 ././.:6401,12,0:1.882e-04,1.548e-04:6413:base_quality;t_lod:28,11,0:341,446,0:60,60,0:7,0:0.010,0.010,1.871e-03:4.362e-04,1.225e-04,0.999:-3.422e+00,-3.510e+00 +MT 10371 . G T, . base_quality;t_lod CONTQ=93.00;DP=13554 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.798e+00,-3.798e+00 ././.:6401,12,0:1.882e-04,1.548e-04:6413:base_quality;t_lod:28,11,0:341,446,0:60,60,0:7,0:-3.422e+00,-3.510e+00 MT 10372 . A . . END=10373 GT:DP:MIN_DP:TLOD ./.:7080:6980:-3.798e+00 ./.:6533:6492:-3.797e+00 MT 10374 . T . . END=10375 GT:DP:MIN_DP:TLOD ./.:7042:7032:-3.255e+00 ./.:6533:6492:-3.797e+00 MT 10376 . A . . END=10379 GT:DP:MIN_DP:TLOD ./.:7062:6979:-3.779e+00 ./.:6533:6492:-3.797e+00 -MT 10380 . C A, . base_quality;t_lod CONTQ=93.00;DP=13657 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7068,0,0:0.00,0.00:7068:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.270e+00,-3.270e+00 ././.:6411,12,0:1.732e-04,1.545e-04:6423:base_quality;t_lod:28,12,0:341,326,0:60,60,0:24,0:0.010,0.00,1.868e-03:4.450e-05,0.150,0.849:-3.461e+00,-3.510e+00 +MT 10380 . C A, . base_quality;t_lod CONTQ=93.00;DP=13657 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7068,0,0:0.00,0.00:7068:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.270e+00,-3.270e+00 ././.:6411,12,0:1.732e-04,1.545e-04:6423:base_quality;t_lod:28,12,0:341,326,0:60,60,0:24,0:-3.461e+00,-3.510e+00 MT 10381 . A . . END=10383 GT:DP:MIN_DP:TLOD ./.:7129:7080:-3.826e+00 ./.:6579:6572:-3.756e+00 -MT 10384 . A C, . base_quality;t_lod CONTQ=93.00;DP=13703 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7129,0,0:0.00,0.00:7129:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.826e+00,-3.826e+00 ././.:6419,22,0:2.975e-04,1.540e-04:6441:base_quality;t_lod:29,8,0:341,381,0:60,60,0:26,0:0.010,0.010,3.416e-03:1.244e-04,1.289e-03,0.999:-3.227e+00,-3.511e+00 +MT 10384 . A C, . base_quality;t_lod CONTQ=93.00;DP=13703 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7129,0,0:0.00,0.00:7129:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.826e+00,-3.826e+00 ././.:6419,22,0:2.975e-04,1.540e-04:6441:base_quality;t_lod:29,8,0:341,381,0:60,60,0:26,0:-3.227e+00,-3.511e+00 MT 10385 . A . . . GT:DP:MIN_DP:TLOD ./.:7129:7080:-3.826e+00 ./.:6573:6573:-3.692e+00 -MT 10386 . G T, . base_quality;t_lod CONTQ=93.00;DP=13693 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.095e+00,-3.095e+00 ././.:6442,9,0:1.967e-04,1.537e-04:6451:base_quality;t_lod:28,13,0:341,410,0:60,60,0:29,0:0.010,0.010,1.395e-03:8.281e-05,9.606e-04,0.999:-3.406e+00,-3.513e+00 -MT 10387 . G T, . base_quality;t_lod CONTQ=93.00;DP=13680 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.757e+00,-3.757e+00 ././.:6435,13,0:1.850e-04,1.537e-04:6448:base_quality;t_lod:28,11,0:341,350,0:60,60,0:17,0:0.010,0.010,2.016e-03:2.209e-04,2.220e-04,1.000:-3.431e+00,-3.512e+00 +MT 10386 . G T, . base_quality;t_lod CONTQ=93.00;DP=13693 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.095e+00,-3.095e+00 ././.:6442,9,0:1.967e-04,1.537e-04:6451:base_quality;t_lod:28,13,0:341,410,0:60,60,0:29,0:-3.406e+00,-3.513e+00 +MT 10387 . G T, . base_quality;t_lod CONTQ=93.00;DP=13680 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.757e+00,-3.757e+00 ././.:6435,13,0:1.850e-04,1.537e-04:6448:base_quality;t_lod:28,11,0:341,350,0:60,60,0:17,0:-3.431e+00,-3.512e+00 MT 10388 . A . . END=10389 GT:DP:MIN_DP:TLOD ./.:7071:7041:-3.757e+00 ./.:6573:6531:-3.811e+00 MT 10390 . T . . . GT:DP:MIN_DP:TLOD ./.:7082:7082:-3.242e+00 ./.:6573:6531:-3.811e+00 MT 10391 . A . . END=10395 GT:DP:MIN_DP:TLOD ./.:7069:7033:-3.778e+00 ./.:6573:6531:-3.811e+00 MT 10396 . G . . . GT:DP:MIN_DP:TLOD ./.:7054:7054:-3.397e+00 ./.:6573:6531:-3.811e+00 MT 10397 . A . . . GT:DP:MIN_DP:TLOD ./.:7093:7093:-3.718e+00 ./.:6573:6531:-3.811e+00 -MT 10398 . A G, . PASS CONTQ=93.00;DP=13742 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7079,0,0:0.00,0.00:7079:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:2.22,2.22 ././.:25,6442,0:0.997,1.533e-04:6467:28,28,0:352,341,0:60,60,0:37,0:0.990,0.990,0.996:0.022,0.024,0.955:20309.55,-3.514e+00 -MT 10399 . C A, . base_quality;t_lod CONTQ=93.00;DP=13673 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7012,0,0:0.00,0.00:7012:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.536e+00,-3.536e+00 ././.:6477,10,0:1.541e-04,1.530e-04:6487:base_quality;t_lod:28,12,0:341,395,0:60,60,0:19,0:0.010,0.010,1.542e-03:6.153e-05,6.022e-03,0.994:-3.511e+00,-3.514e+00 -MT 10400 . C A, . base_quality;t_lod CONTQ=93.00;DP=13574 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6917,0,0:0.00,0.00:6917:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.935e+00,-2.935e+00 ././.:6463,13,0:1.774e-04,1.537e-04:6476:base_quality;t_lod:24,13,0:342,421,0:60,60,0:20,0:0.010,0.010,2.007e-03:5.868e-05,0.030,0.970:-3.449e+00,-3.512e+00 +MT 10398 . A G, . PASS CONTQ=93.00;DP=13742 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7079,0,0:0.00,0.00:7079:.,.,.:.,.,.:.,.,.:.,.:2.22,2.22 ././.:25,6442,0:0.997,1.533e-04:6467:28,28,0:352,341,0:60,60,0:37,0:20309.55,-3.514e+00 +MT 10399 . C A, . base_quality;t_lod CONTQ=93.00;DP=13673 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7012,0,0:0.00,0.00:7012:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.536e+00,-3.536e+00 ././.:6477,10,0:1.541e-04,1.530e-04:6487:base_quality;t_lod:28,12,0:341,395,0:60,60,0:19,0:-3.511e+00,-3.514e+00 +MT 10400 . C A, . base_quality;t_lod CONTQ=93.00;DP=13574 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6917,0,0:0.00,0.00:6917:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.935e+00,-2.935e+00 ././.:6463,13,0:1.774e-04,1.537e-04:6476:base_quality;t_lod:24,13,0:342,421,0:60,60,0:20,0:-3.449e+00,-3.512e+00 MT 10401 . G . . END=10402 GT:DP:MIN_DP:TLOD ./.:7030:6977:-3.726e+00 ./.:6540:6458:-3.806e+00 MT 10403 . A . . . GT:DP:MIN_DP:TLOD ./.:7064:7064:-3.451e+00 ./.:6540:6458:-3.806e+00 MT 10404 . T . . END=10405 GT:DP:MIN_DP:TLOD ./.:7069:7066:-3.803e+00 ./.:6540:6458:-3.806e+00 -MT 10406 . G A, . base_quality;t_lod CONTQ=93.00;DP=13720 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7057,0,0:0.00,0.00:7057:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-6.659e-01,-6.659e-01 ././.:6452,18,0:1.592e-04,1.534e-04:6470:base_quality;t_lod:28,14,0:341,394,0:60,60,0:23,0:0.010,0.010,2.782e-03:3.377e-05,0.408,0.592:-3.497e+00,-3.513e+00 +MT 10406 . G A, . base_quality;t_lod CONTQ=93.00;DP=13720 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7057,0,0:0.00,0.00:7057:PASS:.,.,.:.,.,.:.,.,.:.,.:-6.659e-01,-6.659e-01 ././.:6452,18,0:1.592e-04,1.534e-04:6470:base_quality;t_lod:28,14,0:341,394,0:60,60,0:23,0:-3.497e+00,-3.513e+00 MT 10407 . G . . END=10413 GT:DP:MIN_DP:TLOD ./.:7111:6957:-3.831e+00 ./.:6561:6487:-3.814e+00 -MT 10414 . G T, . base_quality;t_lod CONTQ=93.00;DP=13594 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7111,0,0:0.00,0.00:7111:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 ././.:6442,17,0:1.976e-04,1.537e-04:6459:base_quality;t_lod:28,11,0:341,358,0:60,60,0:11,0:0.010,0.010,2.632e-03:1.392e-04,7.651e-04,0.999:-3.402e+00,-3.512e+00 +MT 10414 . G T, . base_quality;t_lod CONTQ=93.00;DP=13594 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7111,0,0:0.00,0.00:7111:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.831e+00,-3.831e+00 ././.:6442,17,0:1.976e-04,1.537e-04:6459:base_quality;t_lod:28,11,0:341,358,0:60,60,0:11,0:-3.402e+00,-3.512e+00 MT 10415 . T . . . GT:DP:MIN_DP:TLOD ./.:7084:7084:-3.396e+00 ./.:6549:6544:-3.746e+00 MT 10416 . T . . . GT:DP:MIN_DP:TLOD ./.:7112:7096:-3.766e+00 ./.:6549:6544:-3.746e+00 -MT 10417 . T TCAAC, . t_lod CONTQ=93.00;DP=13716 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7112,0,0:0.00,0.00:7112:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.766e+00,-3.766e+00 ././.:6419,1,0:1.537e-04,1.536e-04:6420:t_lod:29,25,0:341,358,0:60,60,0:0,0:0.00,0.010,1.558e-04:1.475e-04,4.739e-05,1.000:-3.512e+00,-3.513e+00 +MT 10417 . T TCAAC, . t_lod CONTQ=93.00;DP=13716 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7112,0,0:0.00,0.00:7112:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.766e+00,-3.766e+00 ././.:6419,1,0:1.537e-04,1.536e-04:6420:t_lod:29,25,0:341,358,0:60,60,0:0,0:-3.512e+00,-3.513e+00 MT 10418 . A . . . GT:DP:MIN_DP:TLOD ./.:7112:7096:-3.766e+00 ./.:6552:6551:-3.775e+00 MT 10419 . A . . . GT:DP:MIN_DP:TLOD ./.:7134:7134:-3.050e+00 ./.:6552:6551:-3.775e+00 -MT 10420 . A C, . base_quality;t_lod CONTQ=93.00;DP=13617 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.768e+00,-3.768e+00 ././.:6611,1,0:1.522e-04,1.512e-04:6612:base_quality;t_lod:29,10,0:341,297,0:60,60,0:7,0:0.010,0.00,1.512e-04:4.901e-05,1.280e-04,1.000:-3.517e+00,-3.519e+00 -MT 10421 . C A, . base_quality;t_lod CONTQ=93.00;DP=13624 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.768e+00,-3.768e+00 ././.:6425,8,0:1.736e-04,1.539e-04:6433:base_quality;t_lod:28,14,0:341,362,0:60,60,0:8,0:0.010,0.010,1.244e-03:1.011e-03,7.825e-05,0.999:-3.460e+00,-3.512e+00 +MT 10420 . A C, . base_quality;t_lod CONTQ=93.00;DP=13617 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.768e+00,-3.768e+00 ././.:6611,1,0:1.522e-04,1.512e-04:6612:base_quality;t_lod:29,10,0:341,297,0:60,60,0:7,0:-3.517e+00,-3.519e+00 +MT 10421 . C A, . base_quality;t_lod CONTQ=93.00;DP=13624 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.768e+00,-3.768e+00 ././.:6425,8,0:1.736e-04,1.539e-04:6433:base_quality;t_lod:28,14,0:341,362,0:60,60,0:8,0:-3.460e+00,-3.512e+00 MT 10422 . A . . END=10429 GT:DP:MIN_DP:TLOD ./.:7126:7005:-3.768e+00 ./.:6518:6447:-3.810e+00 -MT 10430 . T G, . base_quality;t_lod CONTQ=93.00;DP=13575 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.768e+00,-3.768e+00 ././.:6395,9,0:1.779e-04,1.548e-04:6404:base_quality;t_lod:29,9,0:340,307,0:60,60,0:15,0:0.010,0.010,1.405e-03:6.085e-03,5.864e-05,0.994:-3.447e+00,-3.509e+00 -MT 10431 . G T, . base_quality;t_lod CONTQ=93.00;DP=13579 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.768e+00,-3.768e+00 ././.:6387,14,0:1.569e-04,1.550e-04:6401:base_quality;t_lod:28,11,0:340,362,0:60,60,0:28,0:0.010,0.010,2.187e-03:9.925e-05,1.469e-03,0.998:-3.503e+00,-3.509e+00 -MT 10432 . A C, . base_quality;t_lod CONTQ=93.00;DP=13580 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.768e+00,-3.768e+00 ././.:6387,13,0:1.603e-04,1.549e-04:6400:base_quality;t_lod:28,9,0:340,324,0:60,60,0:14,0:0.010,0.010,2.031e-03:8.195e-05,2.551e-03,0.997:-3.494e+00,-3.509e+00 +MT 10430 . T G, . base_quality;t_lod CONTQ=93.00;DP=13575 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.768e+00,-3.768e+00 ././.:6395,9,0:1.779e-04,1.548e-04:6404:base_quality;t_lod:29,9,0:340,307,0:60,60,0:15,0:-3.447e+00,-3.509e+00 +MT 10431 . G T, . base_quality;t_lod CONTQ=93.00;DP=13579 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.768e+00,-3.768e+00 ././.:6387,14,0:1.569e-04,1.550e-04:6401:base_quality;t_lod:28,11,0:340,362,0:60,60,0:28,0:-3.503e+00,-3.509e+00 +MT 10432 . A C, . base_quality;t_lod CONTQ=93.00;DP=13580 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7126,0,0:0.00,0.00:7126:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.768e+00,-3.768e+00 ././.:6387,13,0:1.603e-04,1.549e-04:6400:base_quality;t_lod:28,9,0:340,324,0:60,60,0:14,0:-3.494e+00,-3.509e+00 MT 10433 . T . . . GT:DP:MIN_DP:TLOD ./.:7082:7082:-3.451e+00 ./.:6477:6477:-3.757e+00 -MT 10434 . T A, . base_quality;t_lod CONTQ=93.00;DP=13533 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.813e+00,-3.813e+00 ././.:6386,2,0:1.603e-04,1.549e-04:6388:base_quality;t_lod:28,17,0:339,555,0:60,60,0:48,0:0.010,0.010,3.131e-04:1.077e-04,1.072e-04,1.000:-3.494e+00,-3.509e+00 +MT 10434 . T A, . base_quality;t_lod CONTQ=93.00;DP=13533 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.813e+00,-3.813e+00 ././.:6386,2,0:1.603e-04,1.549e-04:6388:base_quality;t_lod:28,17,0:339,555,0:60,60,0:48,0:-3.494e+00,-3.509e+00 MT 10435 . T . . END=10436 GT:DP:MIN_DP:TLOD ./.:7065:6962:-3.813e+00 ./.:7050:6980:-3.759e+00 MT 10437 . G . . . GT:DP:MIN_DP:TLOD ./.:7065:6962:-3.813e+00 ./.:7002:7002:-3.475e+00 MT 10438 . A . . END=10439 GT:DP:MIN_DP:TLOD ./.:7065:6962:-3.813e+00 ./.:7105:7058:-3.784e+00 @@ -6480,15 +6476,15 @@ MT 10786 . T . . . GT:DP:MIN_DP:TLOD ./.:7151:7151:-3.497e+00 ./.:7175 MT 10787 . A . . . GT:DP:MIN_DP:TLOD ./.:7165:7165:-3.723e+00 ./.:7175:7151:-3.841e+00 MT 10788 . T . . . GT:DP:MIN_DP:TLOD ./.:7152:7152:-3.487e+00 ./.:7175:7151:-3.841e+00 MT 10789 . A . . . GT:DP:MIN_DP:TLOD ./.:7172:7149:-3.787e+00 ./.:7175:7151:-3.841e+00 -MT 10790 . T A, . base_quality;t_lod CONTQ=93.00;DP=13463 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7172,0,0:0.00,0.00:7172:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.787e+00,-3.787e+00 ././.:6153,6,0:1.709e-04,1.610e-04:6159:base_quality;t_lod:29,12,0:335,368,0:60,60,0:23,0:0.010,0.010,9.742e-04:8.764e-05,5.454e-04,0.999:-3.467e+00,-3.492e+00 +MT 10790 . T A, . base_quality;t_lod CONTQ=93.00;DP=13463 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7172,0,0:0.00,0.00:7172:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.787e+00,-3.787e+00 ././.:6153,6,0:1.709e-04,1.610e-04:6159:base_quality;t_lod:29,12,0:335,368,0:60,60,0:23,0:-3.467e+00,-3.492e+00 MT 10791 . T . . END=10796 GT:DP:MIN_DP:TLOD ./.:7172:7149:-3.787e+00 ./.:6196:6101:-3.795e+00 MT 10797 . C . . . GT:DP:MIN_DP:TLOD ./.:7224:7224:-3.424e+00 ./.:6196:6101:-3.795e+00 MT 10798 . A . . END=10805 GT:DP:MIN_DP:TLOD ./.:7187:7165:-3.854e+00 ./.:6196:6101:-3.795e+00 -MT 10806 . G T, . base_quality;t_lod CONTQ=93.00;DP=13277 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7187,0,0:0.00,0.00:7187:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.854e+00,-3.854e+00 ././.:5962,6,0:1.708e-04,1.664e-04:5968:base_quality;t_lod:28,11,0:336,349,0:60,60,0:23,0:0.010,0.010,1.005e-03:9.008e-05,5.733e-04,0.999:-3.467e+00,-3.478e+00 +MT 10806 . G T, . base_quality;t_lod CONTQ=93.00;DP=13277 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7187,0,0:0.00,0.00:7187:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.854e+00,-3.854e+00 ././.:5962,6,0:1.708e-04,1.664e-04:5968:base_quality;t_lod:28,11,0:336,349,0:60,60,0:23,0:-3.467e+00,-3.478e+00 MT 10807 . A . . END=10812 GT:DP:MIN_DP:TLOD ./.:7187:7165:-3.854e+00 ./.:6023:5994:-3.774e+00 -MT 10813 . C A, . base_quality;t_lod CONTQ=93.00;DP=13197 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7248,0,0:0.00,0.00:7248:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.237e+00,-3.237e+00 ././.:5825,8,0:2.550e-04,1.704e-04:5833:base_quality;t_lod:29,17,0:337,349,0:60,60,0:39,0:0.010,0.010,1.372e-03:3.301e-04,1.372e-04,1.000:-3.286e+00,-3.468e+00 +MT 10813 . C A, . base_quality;t_lod CONTQ=93.00;DP=13197 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7248,0,0:0.00,0.00:7248:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.237e+00,-3.237e+00 ././.:5825,8,0:2.550e-04,1.704e-04:5833:base_quality;t_lod:29,17,0:337,349,0:60,60,0:39,0:-3.286e+00,-3.468e+00 MT 10814 . A . . END=10818 GT:DP:MIN_DP:TLOD ./.:7215:7212:-3.799e+00 ./.:5921:5859:-3.768e+00 -MT 10819 . A G, . PASS CONTQ=93.00;DP=13037 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7211,0,0:0.00,0.00:7211:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.374e+00,-2.374e+00 ././.:24,5668,0:0.997,1.745e-04:5692:28,29,0:293,337,0:60,60,0:39,0:0.990,0.990,0.996:0.018,0.035,0.947:18243.78,-3.457e+00 +MT 10819 . A G, . PASS CONTQ=93.00;DP=13037 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7211,0,0:0.00,0.00:7211:.,.,.:.,.,.:.,.,.:.,.:-2.374e+00,-2.374e+00 ././.:24,5668,0:0.997,1.745e-04:5692:28,29,0:293,337,0:60,60,0:39,0:18243.78,-3.457e+00 MT 10820 . C . . END=10825 GT:DP:MIN_DP:TLOD ./.:7170:7152:-3.778e+00 ./.:5587:5428:-3.749e+00 MT 10826 . A . . . GT:DP:MIN_DP:TLOD ./.:7143:7143:-3.272e+00 ./.:5587:5428:-3.749e+00 MT 10827 . T . . . GT:DP:MIN_DP:TLOD ./.:7116:7116:-3.795e+00 ./.:5587:5428:-3.749e+00 @@ -6496,13 +6492,13 @@ MT 10828 . T . . . GT:DP:MIN_DP:TLOD ./.:7124:7124:-3.157e+00 ./.:5587 MT 10829 . T . . . GT:DP:MIN_DP:TLOD ./.:7123:7123:-3.820e+00 ./.:5587:5428:-3.749e+00 MT 10830 . G . . . GT:DP:MIN_DP:TLOD ./.:7114:7114:-3.335e+00 ./.:5587:5428:-3.749e+00 MT 10831 . A . . END=10833 GT:DP:MIN_DP:TLOD ./.:7141:7113:-3.765e+00 ./.:5587:5428:-3.749e+00 -MT 10834 . C A, . base_quality;t_lod CONTQ=93.00;DP=12540 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7141,0,0:0.00,0.00:7141:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.765e+00,-3.765e+00 ././.:5291,10,0:2.302e-04,1.872e-04:5301:base_quality;t_lod:28,10,0:337,315,0:60,60,0:16,0:0.010,0.010,1.886e-03:0.014,6.573e-05,0.986:-3.331e+00,-3.427e+00 +MT 10834 . C A, . base_quality;t_lod CONTQ=93.00;DP=12540 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7141,0,0:0.00,0.00:7141:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.765e+00,-3.765e+00 ././.:5291,10,0:2.302e-04,1.872e-04:5301:base_quality;t_lod:28,10,0:337,315,0:60,60,0:16,0:-3.331e+00,-3.427e+00 MT 10835 . A . . END=10840 GT:DP:MIN_DP:TLOD ./.:7141:7113:-3.765e+00 ./.:5308:5234:-3.715e+00 -MT 10841 . A C, . base_quality;t_lod CONTQ=93.00;DP=12310 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7091,0,0:0.00,0.00:7091:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.313e+00,-3.313e+00 ././.:5055,34,0:2.023e-04,1.960e-04:5089:base_quality;t_lod:28,5,0:336,344,0:60,60,0:34,0:0.010,0.010,6.681e-03:5.380e-05,0.488,0.512:-3.393e+00,-3.407e+00 +MT 10841 . A C, . base_quality;t_lod CONTQ=93.00;DP=12310 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7091,0,0:0.00,0.00:7091:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.313e+00,-3.313e+00 ././.:5055,34,0:2.023e-04,1.960e-04:5089:base_quality;t_lod:28,5,0:336,344,0:60,60,0:34,0:-3.393e+00,-3.407e+00 MT 10842 . C . . END=10843 GT:DP:MIN_DP:TLOD ./.:7111:7073:-3.674e+00 ./.:5162:5160:-3.638e+00 -MT 10844 . A C, . base_quality;t_lod CONTQ=93.00;DP=12228 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7114,0,0:0.00,0.00:7114:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.361e+00,-3.361e+00 ././.:4955,43,0:2.605e-04,1.996e-04:4998:base_quality;t_lod:28,5,0:336,351,0:60,60,0:23,0:0.010,0.010,8.603e-03:4.397e-06,0.958,0.042:-3.285e+00,-3.399e+00 +MT 10844 . A C, . base_quality;t_lod CONTQ=93.00;DP=12228 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7114,0,0:0.00,0.00:7114:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.361e+00,-3.361e+00 ././.:4955,43,0:2.605e-04,1.996e-04:4998:base_quality;t_lod:28,5,0:336,351,0:60,60,0:23,0:-3.285e+00,-3.399e+00 MT 10845 . C . . . GT:DP:MIN_DP:TLOD ./.:7114:7097:-3.361e+00 ./.:5089:5089:-3.694e+00 -MT 10846 . C A, . base_quality;t_lod CONTQ=93.00;DP=12173 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.783e+00,-3.783e+00 ././.:4948,4,0:2.068e-04,2.000e-04:4952:base_quality;t_lod:29,14,0:336,383,0:60,60,0:30,0:0.00,0.010,8.078e-04:7.274e-03,4.979e-05,0.993:-3.383e+00,-3.398e+00 +MT 10846 . C A, . base_quality;t_lod CONTQ=93.00;DP=12173 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7109,0,0:0.00,0.00:7109:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.783e+00,-3.783e+00 ././.:4948,4,0:2.068e-04,2.000e-04:4952:base_quality;t_lod:29,14,0:336,383,0:60,60,0:30,0:-3.383e+00,-3.398e+00 MT 10847 . C . . END=10848 GT:DP:MIN_DP:TLOD ./.:7109:7091:-3.783e+00 ./.:5005:4999:-3.700e+00 MT 10849 . C . . . GT:DP:MIN_DP:TLOD ./.:7095:7095:-3.488e+00 ./.:5005:4999:-3.700e+00 MT 10850 . A . . . GT:DP:MIN_DP:TLOD ./.:7049:7009:-3.682e+00 ./.:4943:4943:-3.490e+00 @@ -6516,47 +6512,47 @@ MT 10865 . A . . END=10866 GT:DP:MIN_DP:TLOD ./.:7099:7091:-3.678e+00 MT 10867 . C . . END=10868 GT:DP:MIN_DP:TLOD ./.:7087:7068:-3.432e+00 ./.:4662:4408:-3.690e+00 MT 10869 . T . . . GT:DP:MIN_DP:TLOD ./.:7060:7060:-3.714e+00 ./.:4662:4408:-3.690e+00 MT 10870 . C . . . GT:DP:MIN_DP:TLOD ./.:7112:7112:-2.836e+00 ./.:4662:4408:-3.690e+00 -MT 10871 . C A, . base_quality;t_lod CONTQ=93.00;DP=11547 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7129,0,0:0.00,0.00:7129:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.697e+00,-3.697e+00 ././.:4297,6,0:2.624e-04,2.304e-04:4303:base_quality;t_lod:29,13,0:334,508,0:60,60,0:14,0:0.010,0.010,1.394e-03:7.366e-04,1.234e-04,0.999:-3.279e+00,-3.337e+00 -MT 10872 . C A, . base_quality;t_lod CONTQ=93.00;DP=11532 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7138,0,0:0.00,0.00:7138:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.463e+00,-3.463e+00 ././.:4277,5,0:2.399e-04,2.315e-04:4282:base_quality;t_lod:29,13,0:334,316,0:60,60,0:7,0:0.010,0.010,1.168e-03:3.998e-04,1.519e-04,0.999:-3.319e+00,-3.334e+00 -MT 10873 . T C,A, . PASS CONTQ=93.00;DP=11486 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7122,0,0,0:0.00,0.00,0.00:7122:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.765e+00,-2.765e+00,-2.765e+00 ./././.:14,4236,5,0:0.997,3.288e-04,2.327e-04:4255:28,29,13,0:289,334,453,0:60,60,60,0:37,37,0:0.990,0.990,0.997:0.037,0.018,0.944:13773.30,-2.973e+00,-3.156e+00 +MT 10871 . C A, . base_quality;t_lod CONTQ=93.00;DP=11547 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7129,0,0:0.00,0.00:7129:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.697e+00,-3.697e+00 ././.:4297,6,0:2.624e-04,2.304e-04:4303:base_quality;t_lod:29,13,0:334,508,0:60,60,0:14,0:-3.279e+00,-3.337e+00 +MT 10872 . C A, . base_quality;t_lod CONTQ=93.00;DP=11532 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7138,0,0:0.00,0.00:7138:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.463e+00,-3.463e+00 ././.:4277,5,0:2.399e-04,2.315e-04:4282:base_quality;t_lod:29,13,0:334,316,0:60,60,0:7,0:-3.319e+00,-3.334e+00 +MT 10873 . T C,A, . PASS CONTQ=93.00;DP=11486 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7122,0,0,0:0.00,0.00,0.00:7122:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.765e+00,-2.765e+00,-2.765e+00 ./././.:14,4236,5,0:0.997,3.288e-04,2.327e-04:4255:28,29,13,0:289,334,453,0:60,60,60,0:37,37,0:13773.30,-2.973e+00,-3.156e+00 MT 10874 . C . . END=10875 GT:DP:MIN_DP:TLOD ./.:7126:7123:-3.827e+00 ./.:4207:4151:-3.627e+00 MT 10876 . A . . . GT:DP:MIN_DP:TLOD ./.:7118:7118:-3.362e+00 ./.:4207:4151:-3.627e+00 MT 10877 . C . . END=10878 GT:DP:MIN_DP:TLOD ./.:7108:7104:-3.835e+00 ./.:4207:4151:-3.627e+00 -MT 10879 . A C, . base_quality;t_lod CONTQ=93.00;DP=11334 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.369e+00,-3.369e+00 ././.:4086,23,0:2.550e-04,2.419e-04:4109:base_quality;t_lod:29,8,0:332,374,0:60,60,0:23,0:0.010,0.010,5.597e-03:4.924e-03,1.716e-04,0.995:-3.293e+00,-3.315e+00 +MT 10879 . A C, . base_quality;t_lod CONTQ=93.00;DP=11334 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.369e+00,-3.369e+00 ././.:4086,23,0:2.550e-04,2.419e-04:4109:base_quality;t_lod:29,8,0:332,374,0:60,60,0:23,0:-3.293e+00,-3.315e+00 MT 10880 . T . . . GT:DP:MIN_DP:TLOD ./.:7108:7103:-3.735e+00 ./.:4114:4114:-3.606e+00 MT 10881 . T . . . GT:DP:MIN_DP:TLOD ./.:7108:7103:-3.735e+00 ./.:4096:4096:-3.461e+00 MT 10882 . T . . . GT:DP:MIN_DP:TLOD ./.:7132:7132:-3.401e+00 ./.:4072:4072:-3.578e+00 MT 10883 . T . . END=10884 GT:DP:MIN_DP:TLOD ./.:7141:7132:-3.816e+00 ./.:4027:4017:-3.472e+00 MT 10885 . T . . . GT:DP:MIN_DP:TLOD ./.:7141:7132:-3.816e+00 ./.:3976:3968:-3.591e+00 MT 10886 . A . . . GT:DP:MIN_DP:TLOD ./.:7136:7135:-3.074e+00 ./.:3976:3968:-3.591e+00 -MT 10887 . A C, . base_quality;t_lod CONTQ=93.00;DP=11174 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7136,0,0:0.00,0.00:7136:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.074e+00,-3.074e+00 ././.:3886,28,0:2.752e-04,2.540e-04:3914:base_quality;t_lod:28,7,0:332,366,0:60,60,0:20,0:0.010,0.010,7.154e-03:6.523e-04,5.368e-04,0.999:-3.260e+00,-3.294e+00 +MT 10887 . A C, . base_quality;t_lod CONTQ=93.00;DP=11174 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7136,0,0:0.00,0.00:7136:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.074e+00,-3.074e+00 ././.:3886,28,0:2.752e-04,2.540e-04:3914:base_quality;t_lod:28,7,0:332,366,0:60,60,0:20,0:-3.260e+00,-3.294e+00 MT 10888 . C . . . GT:DP:MIN_DP:TLOD ./.:7102:7102:-3.659e+00 ./.:3927:3927:-3.599e+00 -MT 10889 . C A, . base_quality;t_lod CONTQ=93.00;DP=11136 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7148,0,0:0.00,0.00:7148:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.446e+00,-3.446e+00 ././.:3885,5,0:3.317e-04,2.548e-04:3890:base_quality;t_lod:28,2,0:332,354,0:60,60,0:8,0:0.010,0.010,1.285e-03:1.699e-03,9.837e-05,0.998:-3.165e+00,-3.293e+00 +MT 10889 . C A, . base_quality;t_lod CONTQ=93.00;DP=11136 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7148,0,0:0.00,0.00:7148:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.446e+00,-3.446e+00 ././.:3885,5,0:3.317e-04,2.548e-04:3890:base_quality;t_lod:28,2,0:332,354,0:60,60,0:8,0:-3.165e+00,-3.293e+00 MT 10890 . A . . . GT:DP:MIN_DP:TLOD ./.:7148:7145:-3.446e+00 ./.:3880:3866:-3.534e+00 MT 10891 . A . . . GT:DP:MIN_DP:TLOD ./.:7100:7100:-2.823e+00 ./.:3880:3866:-3.534e+00 MT 10892 . A . . . GT:DP:MIN_DP:TLOD ./.:7097:7089:-3.832e+00 ./.:3837:3837:-3.394e+00 MT 10893 . T . . END=10895 GT:DP:MIN_DP:TLOD ./.:7097:7089:-3.832e+00 ./.:3806:3789:-3.581e+00 -MT 10896 . A C, . base_quality;t_lod CONTQ=93.00;DP=10948 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7097,0,0:0.00,0.00:7097:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:3828,3,0:2.614e-04,2.605e-04:3831:base_quality;t_lod:28,8,0:331,236,0:60,60,0:9,0:0.010,0.00,7.831e-04:1.547e-04,3.705e-04,0.999:-3.282e+00,-3.283e+00 +MT 10896 . A C, . base_quality;t_lod CONTQ=93.00;DP=10948 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7097,0,0:0.00,0.00:7097:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:3828,3,0:2.614e-04,2.605e-04:3831:base_quality;t_lod:28,8,0:331,236,0:60,60,0:9,0:-3.282e+00,-3.283e+00 MT 10897 . C . . . GT:DP:MIN_DP:TLOD ./.:7097:7089:-3.832e+00 ./.:3742:3742:-3.578e+00 -MT 10898 . A C, . base_quality;t_lod CONTQ=93.00;DP=10929 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7110,0,0:0.00,0.00:7110:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.766e+00,-2.766e+00 ././.:3693,14,0:3.786e-04,2.677e-04:3707:base_quality;t_lod:28,9,0:331,347,0:60,60,0:21,0:0.010,0.010,3.777e-03:1.186e-03,2.340e-04,0.999:-3.107e+00,-3.271e+00 +MT 10898 . A C, . base_quality;t_lod CONTQ=93.00;DP=10929 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7110,0,0:0.00,0.00:7110:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.766e+00,-2.766e+00 ././.:3693,14,0:3.786e-04,2.677e-04:3707:base_quality;t_lod:28,9,0:331,347,0:60,60,0:21,0:-3.107e+00,-3.271e+00 MT 10899 . A . . END=10900 GT:DP:MIN_DP:TLOD ./.:7061:7050:-3.805e+00 ./.:3667:3646:-3.561e+00 MT 10901 . A . . . GT:DP:MIN_DP:TLOD ./.:7077:7077:-3.146e+00 ./.:3667:3646:-3.561e+00 -MT 10902 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=8284 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4297,59,8,0:3.724e-04,2.700e-04,2.282e-04:4364:base_quality;t_lod:28,7,12,0:331,403,372,0:60,60,60,0:35,24,0:0.010,0.010,0.014:4.940e-07,0.997,3.481e-03:-2.969e+00,-3.090e+00,-3.165e+00 ././.:3561,60,0,0:4.930e-04,2.768e-04,2.768e-04:3621:base_quality;t_lod:27,8,0,0:331,364,0,0:60,60,0,0:19,0,0:0.020,0.010,0.017:2.467e-04,0.097,0.903:-3.031e+00,-3.257e+00,-3.257e+00 +MT 10902 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=8284 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4297,59,8,0:3.724e-04,2.700e-04,2.282e-04:4364:base_quality;t_lod:28,7,12,0:331,403,372,0:60,60,60,0:35,24,0:-2.969e+00,-3.090e+00,-3.165e+00 ././.:3561,60,0,0:4.930e-04,2.768e-04,2.768e-04:3621:base_quality;t_lod:27,8,0,0:331,364,0,0:60,60,0,0:19,0,0:-3.031e+00,-3.257e+00,-3.257e+00 MT 10903 . C . . . GT:DP:MIN_DP:TLOD ./.:4397:4397:-3.638e+00 ./.:3607:3607:-3.507e+00 -MT 10904 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=7991 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4377,3,0,0:2.855e-04,2.256e-04,2.256e-04:4380:base_quality;t_lod:28,11,0,0:332,407,0,0:60,60,0,0:32,0,0:0.010,0.010,6.849e-04:2.732e-04,1.260e-04,1.000:-3.058e+00,-3.169e+00,-3.169e+00 ./.:3511,0,0,0:0.00,0.00,0.00:3511:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.479e+00,-3.479e+00,-3.479e+00 +MT 10904 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=7991 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4377,3,0,0:2.855e-04,2.256e-04,2.256e-04:4380:base_quality;t_lod:28,11,0,0:332,407,0,0:60,60,0,0:32,0,0:-3.058e+00,-3.169e+00,-3.169e+00 ./.:3511,0,0,0:0.00,0.00,0.00:3511:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.479e+00,-3.479e+00,-3.479e+00 MT 10905 . T . . END=10907 GT:DP:MIN_DP:TLOD ./.:4297:4265:-3.631e+00 ./.:3511:3473:-3.479e+00 MT 10908 . T . . . GT:DP:MIN_DP:TLOD ./.:4297:4265:-3.631e+00 ./.:3472:3472:-2.999e+00 MT 10909 . T . . . GT:DP:MIN_DP:TLOD ./.:4297:4265:-3.631e+00 ./.:3469:3469:-3.382e+00 MT 10910 . A . . . GT:DP:MIN_DP:TLOD ./.:4297:4265:-3.631e+00 ./.:3457:3457:-3.533e+00 -MT 10911 . G T, . base_quality;t_lod CONTQ=93.00;DP=8011 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4243,7,0:2.345e-04,2.325e-04:4250:base_quality;t_lod:28,13,0:332,253,0:60,60,0:18,0:0.010,0.010,1.647e-03:9.561e-03,7.520e-05,0.990:-3.329e+00,-3.333e+00 ././.:3471,8,0:2.874e-04,2.843e-04:3479:base_quality;t_lod:28,7,0:330,331,0:60,60,0:6,0:0.00,0.010,2.300e-03:0.972,1.620e-06,0.028:-3.241e+00,-3.245e+00 +MT 10911 . G T, . base_quality;t_lod CONTQ=93.00;DP=8011 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4243,7,0:2.345e-04,2.325e-04:4250:base_quality;t_lod:28,13,0:332,253,0:60,60,0:18,0:-3.329e+00,-3.333e+00 ././.:3471,8,0:2.874e-04,2.843e-04:3479:base_quality;t_lod:28,7,0:330,331,0:60,60,0:6,0:-3.241e+00,-3.245e+00 MT 10912 . C . . END=10913 GT:DP:MIN_DP:TLOD ./.:4246:4238:-3.631e+00 ./.:3421:3409:-3.537e+00 -MT 10914 . G T, . base_quality;t_lod CONTQ=93.00;DP=7720 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4233,3,0:2.504e-04,2.343e-04:4236:base_quality;t_lod:27,2,0:331,357,0:60,60,0:3,0:0.00,0.010,7.082e-04:7.684e-03,5.152e-05,0.992:-3.300e+00,-3.329e+00 ./.:3365,0,0:0.00,0.00:3365:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.488e+00,-3.488e+00 +MT 10914 . G T, . base_quality;t_lod CONTQ=93.00;DP=7720 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4233,3,0:2.504e-04,2.343e-04:4236:base_quality;t_lod:27,2,0:331,357,0:60,60,0:3,0:-3.300e+00,-3.329e+00 ./.:3365,0,0:0.00,0.00:3365:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.488e+00,-3.488e+00 MT 10915 . T . . . GT:DP:MIN_DP:TLOD ./.:4189:4171:-3.617e+00 ./.:3365:3360:-3.488e+00 -MT 10916 . T C, . base_quality;t_lod CONTQ=93.00;DP=7748 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4189,0,0:0.00,0.00:4189:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.617e+00,-3.617e+00 ././.:3407,24,0:6.431e-04,2.887e-04:3431:base_quality;t_lod:27,4,0:329,351,0:60,60,0:10,0:0.010,0.010,6.995e-03:0.014,1.934e-04,0.985:-2.798e+00,-3.238e+00 +MT 10916 . T C, . base_quality;t_lod CONTQ=93.00;DP=7748 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4189,0,0:0.00,0.00:4189:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.617e+00,-3.617e+00 ././.:3407,24,0:6.431e-04,2.887e-04:3431:base_quality;t_lod:27,4,0:329,351,0:60,60,0:10,0:-2.798e+00,-3.238e+00 MT 10917 . C . . . GT:DP:MIN_DP:TLOD ./.:4189:4171:-3.617e+00 ./.:3414:3414:-3.498e+00 MT 10918 . C . . . GT:DP:MIN_DP:TLOD ./.:4235:4235:-3.148e+00 ./.:3436:3436:-3.526e+00 MT 10919 . C . . END=10921 GT:DP:MIN_DP:TLOD ./.:4219:4204:-3.624e+00 ./.:3421:3397:-3.446e+00 -MT 10922 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7757 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4169,47,3,0:3.332e-04,3.021e-04,2.360e-04:4219:base_quality;t_lod:28,7,20,0:331,408,381,0:60,60,60,0:16,28,0:0.010,0.010,0.011:5.399e-04,9.654e-04,0.998:-3.010e+00,-3.039e+00,-3.150e+00 ./.:3421,0,0,0:0.00,0.00,0.00:3421:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.446e+00,-3.446e+00,-3.446e+00 +MT 10922 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7757 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4169,47,3,0:3.332e-04,3.021e-04,2.360e-04:4219:base_quality;t_lod:28,7,20,0:331,408,381,0:60,60,60,0:16,28,0:-3.010e+00,-3.039e+00,-3.150e+00 ./.:3421,0,0,0:0.00,0.00,0.00:3421:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.446e+00,-3.446e+00,-3.446e+00 MT 10923 . C . . . GT:DP:MIN_DP:TLOD ./.:4158:4127:-3.624e+00 ./.:3421:3397:-3.446e+00 MT 10924 . C . . . GT:DP:MIN_DP:TLOD ./.:4158:4127:-3.624e+00 ./.:3419:3419:-3.539e+00 MT 10925 . T . . END=10926 GT:DP:MIN_DP:TLOD ./.:4158:4127:-3.624e+00 ./.:3371:3368:-3.493e+00 @@ -6565,52 +6561,52 @@ MT 10928 . T . . . GT:DP:MIN_DP:TLOD ./.:4159:4097:-3.625e+00 ./.:3328 MT 10929 . C . . END=10930 GT:DP:MIN_DP:TLOD ./.:4159:4097:-3.625e+00 ./.:3407:3396:-3.541e+00 MT 10931 . T . . . GT:DP:MIN_DP:TLOD ./.:4128:4128:-3.453e+00 ./.:3407:3396:-3.541e+00 MT 10932 . C . . END=10933 GT:DP:MIN_DP:TLOD ./.:4111:4080:-3.621e+00 ./.:3407:3396:-3.541e+00 -MT 10934 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=7602 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4219,10,5,0:3.329e-04,2.398e-04,2.340e-04:4234:base_quality;t_lod:24,13,10,0:331,288,349,0:60,60,60,0:11,26,0:0.010,0.010,2.365e-03:0.025,8.076e-05,0.975:-2.991e+00,-3.143e+00,-3.154e+00 ./.:3185,0,0,0:0.00,0.00,0.00:3185:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.457e+00,-3.457e+00,-3.457e+00 -MT 10935 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=8051 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4055,135,12,0:5.205e-04,2.440e-04,2.400e-04:4202:base_quality;t_lod:26,3,2,0:330,342,328,0:60,60,60,0:10,8,0:0.020,0.030,0.032:1.000,8.343e-09,5.283e-05:-2.828e+00,-3.136e+00,-3.143e+00 ./././.:3313,122,8,0:4.878e-04,2.964e-04,2.917e-04:3443:base_quality;t_lod:26,4,2,0:328,338,414,0:60,60,60,0:10,16,0:0.030,0.030,0.036:0.991,2.141e-06,9.003e-03:-2.865e+00,-3.052e+00,-3.059e+00 +MT 10934 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=7602 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4219,10,5,0:3.329e-04,2.398e-04,2.340e-04:4234:base_quality;t_lod:24,13,10,0:331,288,349,0:60,60,60,0:11,26,0:-2.991e+00,-3.143e+00,-3.154e+00 ./.:3185,0,0,0:0.00,0.00,0.00:3185:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.457e+00,-3.457e+00,-3.457e+00 +MT 10935 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=8051 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4055,135,12,0:5.205e-04,2.440e-04,2.400e-04:4202:base_quality;t_lod:26,3,2,0:330,342,328,0:60,60,60,0:10,8,0:-2.828e+00,-3.136e+00,-3.143e+00 ./././.:3313,122,8,0:4.878e-04,2.964e-04,2.917e-04:3443:base_quality;t_lod:26,4,2,0:328,338,414,0:60,60,60,0:10,16,0:-2.865e+00,-3.052e+00,-3.059e+00 MT 10936 . C . . . GT:DP:MIN_DP:TLOD ./.:3989:3989:-3.598e+00 ./.:3355:3355:-3.526e+00 -MT 10937 . C A, . base_quality;t_lod CONTQ=93.00;DP=7695 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4031,0,0:0.00,0.00:4031:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.454e+00,-3.454e+00 ././.:3514,1,0:2.806e-04,2.803e-04:3515:base_quality;t_lod:28,14,0:329,550,0:60,60,0:75,0:0.010,0.00,2.845e-04:1.884e-04,1.354e-04,1.000:-3.251e+00,-3.251e+00 +MT 10937 . C A, . base_quality;t_lod CONTQ=93.00;DP=7695 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4031,0,0:0.00,0.00:4031:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.454e+00,-3.454e+00 ././.:3514,1,0:2.806e-04,2.803e-04:3515:base_quality;t_lod:28,14,0:329,550,0:60,60,0:75,0:-3.251e+00,-3.251e+00 MT 10938 . C . . . GT:DP:MIN_DP:TLOD ./.:4039:4039:-3.582e+00 ./.:3421:3406:-3.541e+00 MT 10939 . C . . . GT:DP:MIN_DP:TLOD ./.:4063:4063:-3.395e+00 ./.:3421:3406:-3.541e+00 MT 10940 . C . . . GT:DP:MIN_DP:TLOD ./.:4041:4015:-3.620e+00 ./.:3421:3406:-3.541e+00 -MT 10941 . T C, . base_quality;t_lod CONTQ=93.00;DP=7708 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4041,0,0:0.00,0.00:4041:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.620e+00,-3.620e+00 ././.:3481,49,0:3.052e-04,2.813e-04:3530:base_quality;t_lod:29,2,0:328,330,0:60,60,0:6,0:0.010,0.010,0.014:1.000,3.473e-19,4.688e-15:-3.216e+00,-3.250e+00 +MT 10941 . T C, . base_quality;t_lod CONTQ=93.00;DP=7708 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4041,0,0:0.00,0.00:4041:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.620e+00,-3.620e+00 ././.:3481,49,0:3.052e-04,2.813e-04:3530:base_quality;t_lod:29,2,0:328,330,0:60,60,0:6,0:-3.216e+00,-3.250e+00 MT 10942 . A . . . GT:DP:MIN_DP:TLOD ./.:4031:4025:-3.490e+00 ./.:3400:3400:-3.403e+00 -MT 10943 . A C, . base_quality;t_lod CONTQ=93.00;DP=7757 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4031,0,0:0.00,0.00:4031:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.490e+00,-3.490e+00 ././.:3533,36,0:3.301e-04,2.779e-04:3569:base_quality;t_lod:27,6,0:327,367,0:60,60,0:6,0:0.010,0.010,0.010:2.940e-03,3.396e-04,0.997:-3.184e+00,-3.255e+00 +MT 10943 . A C, . base_quality;t_lod CONTQ=93.00;DP=7757 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4031,0,0:0.00,0.00:4031:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.490e+00,-3.490e+00 ././.:3533,36,0:3.301e-04,2.779e-04:3569:base_quality;t_lod:27,6,0:327,367,0:60,60,0:6,0:-3.184e+00,-3.255e+00 MT 10944 . C . . . GT:DP:MIN_DP:TLOD ./.:4031:4025:-3.490e+00 ./.:3427:3427:-3.523e+00 -MT 10945 . A C, . base_quality;t_lod CONTQ=93.00;DP=8177 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4213,62,0:2.725e-04,2.341e-04:4275:base_quality;t_lod:27,7,0:330,344,0:60,60,0:9,0:0.010,0.010,0.015:0.987,1.644e-06,0.013:-3.268e+00,-3.330e+00 ././.:3547,50,0:4.299e-04,2.773e-04:3597:base_quality;t_lod:27,7,0:327,343,0:60,60,0:9,0:0.010,0.010,0.014:0.249,1.424e-04,0.751:-3.082e+00,-3.256e+00 -MT 10946 . A C, . base_quality;t_lod CONTQ=93.00;DP=8189 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4087,149,0:9.178e-04,2.397e-04:4236:base_quality;t_lod:25,5,0:329,348,0:60,60,0:15,0:0.030,0.020,0.035:3.335e-07,0.998,1.594e-03:-2.596e+00,-3.320e+00 ././.:3443,123,0:7.367e-04,2.843e-04:3566:base_quality;t_lod:25,5,0:327,350,0:60,60,0:21,0:0.030,0.020,0.034:1.001e-04,0.680,0.320:-2.873e+00,-3.246e+00 +MT 10945 . A C, . base_quality;t_lod CONTQ=93.00;DP=8177 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4213,62,0:2.725e-04,2.341e-04:4275:base_quality;t_lod:27,7,0:330,344,0:60,60,0:9,0:-3.268e+00,-3.330e+00 ././.:3547,50,0:4.299e-04,2.773e-04:3597:base_quality;t_lod:27,7,0:327,343,0:60,60,0:9,0:-3.082e+00,-3.256e+00 +MT 10946 . A C, . base_quality;t_lod CONTQ=93.00;DP=8189 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4087,149,0:9.178e-04,2.397e-04:4236:base_quality;t_lod:25,5,0:329,348,0:60,60,0:15,0:-2.596e+00,-3.320e+00 ././.:3443,123,0:7.367e-04,2.843e-04:3566:base_quality;t_lod:25,5,0:327,350,0:60,60,0:21,0:-2.873e+00,-3.246e+00 MT 10947 . C . . . GT:DP:MIN_DP:TLOD ./.:4068:4068:-3.601e+00 ./.:3495:3495:-3.535e+00 -MT 10948 . C A, . base_quality;t_lod CONTQ=93.00;DP=7992 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4300,7,0:4.016e-04,2.298e-04:4307:base_quality;t_lod:28,13,0:331,293,0:60,60,0:6,0:0.00,0.010,1.625e-03:0.418,3.058e-05,0.582:-3.026e+00,-3.338e+00 ./.:3543,0,0:0.00,0.00:3543:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.326e+00,-3.326e+00 -MT 10949 . C A, . t_lod CONTQ=93.00;DP=7956 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4153,0,0:0.00,0.00:4153:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.622e+00,-3.622e+00 ././.:3657,6,0:1.022e-03,2.692e-04:3663:t_lod:28,27,0:327,353,0:60,60,0:28,0:0.010,0.010,1.638e-03:5.294e-04,1.937e-04,0.999:-2.200e+00,-3.269e+00 +MT 10948 . C A, . base_quality;t_lod CONTQ=93.00;DP=7992 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4300,7,0:4.016e-04,2.298e-04:4307:base_quality;t_lod:28,13,0:331,293,0:60,60,0:6,0:-3.026e+00,-3.338e+00 ./.:3543,0,0:0.00,0.00:3543:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.326e+00,-3.326e+00 +MT 10949 . C A, . t_lod CONTQ=93.00;DP=7956 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4153,0,0:0.00,0.00:4153:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.622e+00,-3.622e+00 ././.:3657,6,0:1.022e-03,2.692e-04:3663:t_lod:28,27,0:327,353,0:60,60,0:28,0:-2.200e+00,-3.269e+00 MT 10950 . C . . . GT:DP:MIN_DP:TLOD ./.:4174:4174:-3.419e+00 ./.:3574:3574:-3.484e+00 MT 10951 . C . . END=10952 GT:DP:MIN_DP:TLOD ./.:4171:4167:-3.622e+00 ./.:3609:3601:-3.565e+00 -MT 10953 . T C, . base_quality;t_lod CONTQ=93.00;DP=8303 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4186,88,0:3.135e-04,2.342e-04:4274:base_quality;t_lod:27,3,0:332,336,0:60,60,0:8,0:0.010,0.020,0.021:1.00,0.00,0.00:-3.214e+00,-3.329e+00 ././.:3651,48,0:3.078e-04,2.687e-04:3699:base_quality;t_lod:27,2,0:327,347,0:60,60,0:6,0:0.010,0.010,0.013:0.999,8.101e-08,7.055e-04:-3.214e+00,-3.270e+00 +MT 10953 . T C, . base_quality;t_lod CONTQ=93.00;DP=8303 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4186,88,0:3.135e-04,2.342e-04:4274:base_quality;t_lod:27,3,0:332,336,0:60,60,0:8,0:-3.214e+00,-3.329e+00 ././.:3651,48,0:3.078e-04,2.687e-04:3699:base_quality;t_lod:27,2,0:327,347,0:60,60,0:6,0:-3.214e+00,-3.270e+00 MT 10954 . C . . END=10955 GT:DP:MIN_DP:TLOD ./.:4187:4180:-3.624e+00 ./.:3657:3638:-3.568e+00 MT 10956 . T . . . GT:DP:MIN_DP:TLOD ./.:4180:4177:-3.463e+00 ./.:3657:3638:-3.568e+00 MT 10957 . A . . . GT:DP:MIN_DP:TLOD ./.:4180:4177:-3.463e+00 ./.:3701:3686:-3.499e+00 MT 10958 . A . . . GT:DP:MIN_DP:TLOD ./.:4161:4161:-3.573e+00 ./.:3701:3686:-3.499e+00 -MT 10959 . T G, . base_quality;t_lod CONTQ=93.00;DP=8136 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4309,8,0:2.814e-04,2.297e-04:4317:base_quality;t_lod:28,8,0:331,411,0:60,60,0:30,0:0.010,0.010,1.853e-03:4.411e-04,1.903e-04,0.999:-3.245e+00,-3.338e+00 ./.:3701,0,0:0.00,0.00:3701:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.499e+00,-3.499e+00 -MT 10960 . A C, . base_quality;t_lod CONTQ=93.00;DP=8137 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4255,40,0:3.482e-04,2.315e-04:4295:base_quality;t_lod:28,7,0:331,327,0:60,60,0:38,0:0.010,0.010,9.313e-03:0.955,4.661e-06,0.045:-3.140e+00,-3.334e+00 ./.:3701,0,0:0.00,0.00:3701:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.499e+00,-3.499e+00 +MT 10959 . T G, . base_quality;t_lod CONTQ=93.00;DP=8136 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4309,8,0:2.814e-04,2.297e-04:4317:base_quality;t_lod:28,8,0:331,411,0:60,60,0:30,0:-3.245e+00,-3.338e+00 ./.:3701,0,0:0.00,0.00:3701:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.499e+00,-3.499e+00 +MT 10960 . A C, . base_quality;t_lod CONTQ=93.00;DP=8137 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4255,40,0:3.482e-04,2.315e-04:4295:base_quality;t_lod:28,7,0:331,327,0:60,60,0:38,0:-3.140e+00,-3.334e+00 ./.:3701,0,0:0.00,0.00:3701:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.499e+00,-3.499e+00 MT 10961 . C . . END=10962 GT:DP:MIN_DP:TLOD ./.:4236:4219:-3.623e+00 ./.:3785:3754:-3.571e+00 -MT 10963 . A C, . base_quality;t_lod CONTQ=93.00;DP=8233 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4318,33,0:2.457e-04,2.290e-04:4351:base_quality;t_lod:28,7,0:332,347,0:60,60,0:16,0:0.010,0.010,7.584e-03:0.039,1.360e-04,0.960:-3.309e+00,-3.339e+00 ./.:3785,0,0:0.00,0.00:3785:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.571e+00,-3.571e+00 +MT 10963 . A C, . base_quality;t_lod CONTQ=93.00;DP=8233 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4318,33,0:2.457e-04,2.290e-04:4351:base_quality;t_lod:28,7,0:332,347,0:60,60,0:16,0:-3.309e+00,-3.339e+00 ./.:3785,0,0:0.00,0.00:3785:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.571e+00,-3.571e+00 MT 10964 . A . . . GT:DP:MIN_DP:TLOD ./.:4289:4265:-3.640e+00 ./.:3785:3754:-3.571e+00 MT 10965 . C . . . GT:DP:MIN_DP:TLOD ./.:4289:4265:-3.640e+00 ./.:3840:3840:-3.458e+00 -MT 10966 . T C, . base_quality;t_lod CONTQ=93.00;DP=8515 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4373,25,0:3.318e-04,2.264e-04:4398:base_quality;t_lod:28,8,0:331,295,0:60,60,0:49,0:0.010,0.010,5.684e-03:0.414,5.558e-05,0.586:-3.161e+00,-3.344e+00 ././.:3862,18,0:2.613e-04,2.557e-04:3880:base_quality;t_lod:28,7,0:327,328,0:60,60,0:52,0:0.010,0.010,4.639e-03:0.344,6.147e-05,0.656:-3.282e+00,-3.291e+00 +MT 10966 . T C, . base_quality;t_lod CONTQ=93.00;DP=8515 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4373,25,0:3.318e-04,2.264e-04:4398:base_quality;t_lod:28,8,0:331,295,0:60,60,0:49,0:-3.161e+00,-3.344e+00 ././.:3862,18,0:2.613e-04,2.557e-04:3880:base_quality;t_lod:28,7,0:327,328,0:60,60,0:52,0:-3.282e+00,-3.291e+00 MT 10967 . A . . END=10970 GT:DP:MIN_DP:TLOD ./.:4370:4334:-3.634e+00 ./.:3917:3866:-3.593e+00 -MT 10971 . G T, . base_quality;t_lod CONTQ=93.00;DP=8649 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4414,11,0:2.341e-04,2.245e-04:4425:base_quality;t_lod:27,12,0:331,311,0:60,60,0:41,0:0.010,0.010,2.486e-03:0.555,2.712e-05,0.445:-3.330e+00,-3.348e+00 ././.:3964,7,0:2.613e-04,2.506e-04:3971:base_quality;t_lod:27,11,0:328,430,0:60,60,0:42,0:0.010,0.010,1.763e-03:4.828e-03,8.918e-05,0.995:-3.282e+00,-3.300e+00 -MT 10972 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=8677 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:4291,125,6,0:8.913e-04,2.290e-04,2.278e-04:4422:base_quality;t_lod:27,7,12,0:330,359,391,0:60,60,60,0:41,23,0:0.020,0.030,0.028:0.427,1.274e-04,0.573:-2.565e+00,-3.163e+00,-3.166e+00 ./././.:3881,78,3,0:3.580e-04,2.538e-04,2.529e-04:3962:base_quality;t_lod:27,7,13,0:328,323,401,0:60,60,60,0:40,8,0:0.020,0.020,0.020:0.019,2.838e-04,0.981:-2.981e+00,-3.118e+00,-3.120e+00 -MT 10973 . C A, . base_quality;t_lod CONTQ=93.00;DP=8481 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4366,0,0:0.00,0.00:4366:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.641e+00,-3.641e+00 ././.:4009,4,0:2.482e-04,2.471e-04:4013:base_quality;t_lod:28,12,0:327,358,0:60,60,0:40,0:0.010,0.010,9.968e-04:1.675e-03,8.124e-05,0.998:-3.304e+00,-3.306e+00 +MT 10971 . G T, . base_quality;t_lod CONTQ=93.00;DP=8649 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4414,11,0:2.341e-04,2.245e-04:4425:base_quality;t_lod:27,12,0:331,311,0:60,60,0:41,0:-3.330e+00,-3.348e+00 ././.:3964,7,0:2.613e-04,2.506e-04:3971:base_quality;t_lod:27,11,0:328,430,0:60,60,0:42,0:-3.282e+00,-3.300e+00 +MT 10972 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=8677 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:4291,125,6,0:8.913e-04,2.290e-04,2.278e-04:4422:base_quality;t_lod:27,7,12,0:330,359,391,0:60,60,60,0:41,23,0:-2.565e+00,-3.163e+00,-3.166e+00 ./././.:3881,78,3,0:3.580e-04,2.538e-04,2.529e-04:3962:base_quality;t_lod:27,7,13,0:328,323,401,0:60,60,60,0:40,8,0:-2.981e+00,-3.118e+00,-3.120e+00 +MT 10973 . C A, . base_quality;t_lod CONTQ=93.00;DP=8481 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4366,0,0:0.00,0.00:4366:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.641e+00,-3.641e+00 ././.:4009,4,0:2.482e-04,2.471e-04:4013:base_quality;t_lod:28,12,0:327,358,0:60,60,0:40,0:-3.304e+00,-3.306e+00 MT 10974 . T . . . GT:DP:MIN_DP:TLOD ./.:4418:4418:-3.213e+00 ./.:4057:4002:-3.609e+00 MT 10975 . C . . . GT:DP:MIN_DP:TLOD ./.:4449:4449:-3.605e+00 ./.:4057:4002:-3.609e+00 MT 10976 . C . . . GT:DP:MIN_DP:TLOD ./.:4486:4486:-3.128e+00 ./.:4057:4002:-3.609e+00 MT 10977 . T . . . GT:DP:MIN_DP:TLOD ./.:4489:4489:-3.639e+00 ./.:4057:4002:-3.609e+00 -MT 10978 . A C, . base_quality;t_lod CONTQ=93.00;DP=8684 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:4465,0,0:0.00,0.00:4465:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.428e+00,-3.428e+00 ././.:4024,63,0:4.818e-04,2.449e-04:4087:base_quality;t_lod:27,5,0:327,354,0:60,60,0:34,0:0.010,0.010,0.015:6.631e-04,9.923e-04,0.998:-3.042e+00,-3.310e+00 +MT 10978 . A C, . base_quality;t_lod CONTQ=93.00;DP=8684 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:4465,0,0:0.00,0.00:4465:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.428e+00,-3.428e+00 ././.:4024,63,0:4.818e-04,2.449e-04:4087:base_quality;t_lod:27,5,0:327,354,0:60,60,0:34,0:-3.042e+00,-3.310e+00 MT 10979 . C . . . GT:DP:MIN_DP:TLOD ./.:4488:4488:-3.653e+00 ./.:4184:4110:-3.628e+00 -MT 10980 . C A, . base_quality;t_lod CONTQ=93.00;DP=8784 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4545,3,0:2.182e-04,2.176e-04:4548:base_quality;t_lod:28,12,0:332,352,0:60,60,0:50,0:0.010,0.010,6.596e-04:1.790e-04,1.522e-04,1.000:-3.360e+00,-3.361e+00 ./.:4184,0,0:0.00,0.00:4184:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.628e+00,-3.628e+00 +MT 10980 . C A, . base_quality;t_lod CONTQ=93.00;DP=8784 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4545,3,0:2.182e-04,2.176e-04:4548:base_quality;t_lod:28,12,0:332,352,0:60,60,0:50,0:-3.360e+00,-3.361e+00 ./.:4184,0,0:0.00,0.00:4184:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.628e+00,-3.628e+00 MT 10981 . C . . . GT:DP:MIN_DP:TLOD ./.:5956:5956:-3.487e+00 ./.:4184:4110:-3.628e+00 MT 10982 . C . . . GT:DP:MIN_DP:TLOD ./.:5969:5969:-3.619e+00 ./.:4184:4110:-3.628e+00 MT 10983 . T . . . GT:DP:MIN_DP:TLOD ./.:5690:5690:-3.299e-01 ./.:4184:4110:-3.628e+00 MT 10984 . C . . . GT:DP:MIN_DP:TLOD ./.:5817:5817:-3.752e+00 ./.:4184:4110:-3.628e+00 -MT 10985 . A C, . base_quality;t_lod CONTQ=93.00;DP=10078 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5706,0,0:0.00,0.00:5706:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.899e+00,-2.899e+00 ././.:4199,41,0:2.897e-04,2.346e-04:4240:base_quality;t_lod:28,5,0:328,353,0:60,60,0:61,0:0.010,0.010,9.670e-03:1.000,1.067e-09,1.331e-05:-3.242e+00,-3.329e+00 +MT 10985 . A C, . base_quality;t_lod CONTQ=93.00;DP=10078 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5706,0,0:0.00,0.00:5706:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.899e+00,-2.899e+00 ././.:4199,41,0:2.897e-04,2.346e-04:4240:base_quality;t_lod:28,5,0:328,353,0:60,60,0:61,0:-3.242e+00,-3.329e+00 MT 10986 . C . . . GT:DP:MIN_DP:TLOD ./.:5802:5802:-3.738e+00 ./.:5575:5575:-3.622e+00 MT 10987 . A . . . GT:DP:MIN_DP:TLOD ./.:5769:5769:-3.331e+00 ./.:5549:5549:-2.773e+00 MT 10988 . A . . . GT:DP:MIN_DP:TLOD ./.:5689:5689:-2.881e+00 ./.:5519:5519:-3.569e+00 @@ -6995,41 +6991,41 @@ MT 11684 . T . . END=11685 GT:DP:MIN_DP:TLOD ./.:7122:7120:-3.445e+00 MT 11686 . C . . END=11689 GT:DP:MIN_DP:TLOD ./.:7156:7140:-3.703e+00 ./.:5986:5871:-3.765e+00 MT 11690 . G . . . GT:DP:MIN_DP:TLOD ./.:7021:7021:-3.377e+00 ./.:5986:5871:-3.765e+00 MT 11691 . G . . . GT:DP:MIN_DP:TLOD ./.:7123:6925:-3.848e+00 ./.:5796:5796:-3.249e+00 -MT 11692 . C A, . base_quality;t_lod CONTQ=93.00;DP=12562 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7123,0,0:0.00,0.00:7123:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.848e+00,-3.848e+00 ././.:5461,5,0:1.877e-04,1.813e-04:5466:base_quality;t_lod:24,13,0:340,373,0:60,60,0:53,0:0.010,0.010,9.147e-04:2.679e-04,1.192e-04,1.000:-3.426e+00,-3.441e+00 -MT 11693 . G T, . base_quality;t_lod CONTQ=93.00;DP=12573 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7123,0,0:0.00,0.00:7123:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.848e+00,-3.848e+00 ././.:5448,7,0:1.827e-04,1.816e-04:5455:base_quality;t_lod:25,12,0:340,355,0:60,60,0:5,0:0.010,0.010,1.283e-03:7.810e-05,1.732e-03,0.998:-3.437e+00,-3.440e+00 -MT 11694 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12571 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7123,0,0:0.00,0.00:7123:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.848e+00,-3.848e+00 ././.:5461,0,0:1.808e-04,1.808e-04:5461:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:0.00,0.00,0.00:6.024e-05,5.536e-05,1.000:-3.442e+00,-3.442e+00 +MT 11692 . C A, . base_quality;t_lod CONTQ=93.00;DP=12562 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7123,0,0:0.00,0.00:7123:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.848e+00,-3.848e+00 ././.:5461,5,0:1.877e-04,1.813e-04:5466:base_quality;t_lod:24,13,0:340,373,0:60,60,0:53,0:-3.426e+00,-3.441e+00 +MT 11693 . G T, . base_quality;t_lod CONTQ=93.00;DP=12573 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7123,0,0:0.00,0.00:7123:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.848e+00,-3.848e+00 ././.:5448,7,0:1.827e-04,1.816e-04:5455:base_quality;t_lod:25,12,0:340,355,0:60,60,0:5,0:-3.437e+00,-3.440e+00 +MT 11694 . C T, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12571 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7123,0,0:0.00,0.00:7123:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.848e+00,-3.848e+00 ././.:5461,0,0:1.808e-04,1.808e-04:5461:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:-3.442e+00,-3.442e+00 MT 11695 . A . . END=11699 GT:DP:MIN_DP:TLOD ./.:7123:6925:-3.848e+00 ./.:5578:5522:-3.748e+00 MT 11700 . T . . END=11701 GT:DP:MIN_DP:TLOD ./.:7161:7157:-3.457e+00 ./.:5578:5522:-3.748e+00 MT 11702 . C . . END=11706 GT:DP:MIN_DP:TLOD ./.:7202:7186:-3.761e+00 ./.:5578:5522:-3.748e+00 MT 11707 . A . . . GT:DP:MIN_DP:TLOD ./.:7198:7198:-3.021e+00 ./.:5578:5522:-3.748e+00 MT 11708 . A . . END=11710 GT:DP:MIN_DP:TLOD ./.:7179:7139:-3.791e+00 ./.:5578:5522:-3.748e+00 -MT 11711 . G T, . base_quality;t_lod CONTQ=93.00;DP=12684 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6983,0,0:0.00,0.00:6983:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.067e+00,-3.067e+00 ././.:5504,10,0:1.963e-04,1.799e-04:5514:base_quality;t_lod:24,14,0:341,352,0:60,60,0:38,0:0.010,0.010,1.814e-03:9.531e-04,1.028e-04,0.999:-3.406e+00,-3.444e+00 +MT 11711 . G T, . base_quality;t_lod CONTQ=93.00;DP=12684 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6983,0,0:0.00,0.00:6983:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.067e+00,-3.067e+00 ././.:5504,10,0:1.963e-04,1.799e-04:5514:base_quality;t_lod:24,14,0:341,352,0:60,60,0:38,0:-3.406e+00,-3.444e+00 MT 11712 . C . . END=11713 GT:DP:MIN_DP:TLOD ./.:7163:6988:-3.827e+00 ./.:5613:5602:-3.640e+00 -MT 11714 . C A, . base_quality;t_lod CONTQ=93.00;DP=12706 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.827e+00,-3.827e+00 ././.:5540,3,0:2.364e-04,1.783e-04:5543:base_quality;t_lod:29,13,0:341,371,0:60,60,0:8,0:0.010,0.010,5.412e-04:2.134e-04,8.976e-05,1.000:-3.309e+00,-3.448e+00 +MT 11714 . C A, . base_quality;t_lod CONTQ=93.00;DP=12706 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7163,0,0:0.00,0.00:7163:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.827e+00,-3.827e+00 ././.:5540,3,0:2.364e-04,1.783e-04:5543:base_quality;t_lod:29,13,0:341,371,0:60,60,0:8,0:-3.309e+00,-3.448e+00 MT 11715 . A . . END=11716 GT:DP:MIN_DP:TLOD ./.:7163:6988:-3.827e+00 ./.:5629:5618:-3.751e+00 MT 11717 . G . . . GT:DP:MIN_DP:TLOD ./.:7163:6988:-3.827e+00 ./.:5560:5560:-3.468e+00 -MT 11718 . G T, . base_quality;t_lod CONTQ=93.00;DP=12752 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7008,0,0:0.00,0.00:7008:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.126e+00,-3.126e+00 ././.:5559,4,0:1.786e-04,1.780e-04:5563:base_quality;t_lod:28,11,0:341,329,0:60,60,0:39,0:0.010,0.010,7.190e-04:1.441e-04,1.432e-04,1.000:-3.447e+00,-3.448e+00 -MT 11719 . G A,C, . PASS CONTQ=93.00;DP=12720 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6983,0,0,0:0.00,0.00,0.00:6983:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:0.595,0.595,0.595 ./././.:44,5475,50,0:0.995,2.773e-04,1.790e-04:5569:26,28,4,0:332,340,380,0:60,60,60,0:40,25,0:0.990,0.990,0.992:0.015,0.033,0.952:17026.83,-3.089e+00,-3.271e+00 +MT 11718 . G T, . base_quality;t_lod CONTQ=93.00;DP=12752 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7008,0,0:0.00,0.00:7008:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.126e+00,-3.126e+00 ././.:5559,4,0:1.786e-04,1.780e-04:5563:base_quality;t_lod:28,11,0:341,329,0:60,60,0:39,0:-3.447e+00,-3.448e+00 +MT 11719 . G A,C, . PASS CONTQ=93.00;DP=12720 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6983,0,0,0:0.00,0.00,0.00:6983:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:0.595,0.595,0.595 ./././.:44,5475,50,0:0.995,2.773e-04,1.790e-04:5569:26,28,4,0:332,340,380,0:60,60,60,0:40,25,0:17026.83,-3.089e+00,-3.271e+00 MT 11720 . C . . END=11722 GT:DP:MIN_DP:TLOD ./.:7170:7128:-3.831e+00 ./.:5622:5599:-3.746e+00 -MT 11723 . A T, . t_lod CONTQ=93.00;DP=12888 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7170,0,0:0.00,0.00:7170:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.831e+00,-3.831e+00 ././.:5562,2,0:2.145e-04,1.775e-04:5564:t_lod:29,20,0:341,303,0:60,60,0:35,0:0.010,0.010,3.595e-04:1.172e-04,1.214e-04,1.000:-3.363e+00,-3.450e+00 +MT 11723 . A T, . t_lod CONTQ=93.00;DP=12888 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7170,0,0:0.00,0.00:7170:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.831e+00,-3.831e+00 ././.:5562,2,0:2.145e-04,1.775e-04:5564:t_lod:29,20,0:341,303,0:60,60,0:35,0:-3.363e+00,-3.450e+00 MT 11724 . C . . END=11727 GT:DP:MIN_DP:TLOD ./.:7170:7128:-3.831e+00 ./.:5621:5605:-3.744e+00 MT 11728 . C . . . GT:DP:MIN_DP:TLOD ./.:7215:7215:-3.038e+00 ./.:5621:5605:-3.744e+00 -MT 11729 . T G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12872 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7180,0,0:0.00,0.00:7180:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.844e+00,-3.844e+00 ././.:5642,0,0:1.762e-04,1.762e-04:5642:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:0.00,0.00,0.00:5.499e-05,5.673e-05,1.000:-3.453e+00,-3.453e+00 +MT 11729 . T G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12872 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7180,0,0:0.00,0.00:7180:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.844e+00,-3.844e+00 ././.:5642,0,0:1.762e-04,1.762e-04:5642:base_quality;contamination;mapping_quality;t_lod:28,0,0:340,0,0:60,0,0:0,0:-3.453e+00,-3.453e+00 MT 11730 . C . . END=11733 GT:DP:MIN_DP:TLOD ./.:7180:7150:-3.844e+00 ./.:5614:5611:-3.748e+00 MT 11734 . A . . . GT:DP:MIN_DP:TLOD ./.:7180:7150:-3.844e+00 ./.:5606:5606:-3.400e+00 MT 11735 . C . . END=11741 GT:DP:MIN_DP:TLOD ./.:7180:7150:-3.844e+00 ./.:5609:5601:-3.748e+00 -MT 11742 . G T, . t_lod CONTQ=93.00;DP=12827 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7180,0,0:0.00,0.00:7180:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.844e+00,-3.844e+00 ././.:5577,3,0:2.208e-04,1.783e-04:5580:t_lod:29,27,0:339,308,0:60,60,0:33,0:0.010,0.010,5.376e-04:8.664e-05,2.224e-04,1.000:-3.350e+00,-3.448e+00 +MT 11742 . G T, . t_lod CONTQ=93.00;DP=12827 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7180,0,0:0.00,0.00:7180:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.844e+00,-3.844e+00 ././.:5577,3,0:2.208e-04,1.783e-04:5580:t_lod:29,27,0:339,308,0:60,60,0:33,0:-3.350e+00,-3.448e+00 MT 11743 . C . . . GT:DP:MIN_DP:TLOD ./.:7180:7150:-3.844e+00 ./.:5808:5734:-3.763e+00 MT 11744 . C . . . GT:DP:MIN_DP:TLOD ./.:7229:7229:-3.499e+00 ./.:5808:5734:-3.763e+00 MT 11745 . T . . END=11746 GT:DP:MIN_DP:TLOD ./.:7194:7148:-3.853e+00 ./.:5808:5734:-3.763e+00 -MT 11747 . G T, . base_quality;t_lod CONTQ=93.00;DP=13005 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7194,0,0:0.00,0.00:7194:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.853e+00,-3.853e+00 ././.:5746,4,0:1.741e-04,1.730e-04:5750:base_quality;t_lod:28,13,0:339,326,0:60,60,0:33,0:0.010,0.010,6.957e-04:2.901e-04,8.651e-05,1.000:-3.458e+00,-3.461e+00 +MT 11747 . G T, . base_quality;t_lod CONTQ=93.00;DP=13005 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7194,0,0:0.00,0.00:7194:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.853e+00,-3.853e+00 ././.:5746,4,0:1.741e-04,1.730e-04:5750:base_quality;t_lod:28,13,0:339,326,0:60,60,0:33,0:-3.458e+00,-3.461e+00 MT 11748 . C . . . GT:DP:MIN_DP:TLOD ./.:7194:7148:-3.853e+00 ./.:5962:5904:-3.765e+00 MT 11749 . A . . . GT:DP:MIN_DP:TLOD ./.:7208:7208:-3.477e+00 ./.:5962:5904:-3.765e+00 MT 11750 . A . . . GT:DP:MIN_DP:TLOD ./.:7177:7177:-3.537e+00 ./.:5962:5904:-3.765e+00 -MT 11751 . A C, . base_quality;t_lod CONTQ=93.00;DP=13123 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7149,0,0:0.00,0.00:7149:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.869e+00,-2.869e+00 ././.:5837,41,0:1.956e-04,1.701e-04:5878:base_quality;t_lod:28,7,0:339,358,0:60,60,0:37,0:0.010,0.010,6.975e-03:4.644e-05,0.476,0.524:-3.410e+00,-3.468e+00 +MT 11751 . A C, . base_quality;t_lod CONTQ=93.00;DP=13123 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7149,0,0:0.00,0.00:7149:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.869e+00,-2.869e+00 ././.:5837,41,0:1.956e-04,1.701e-04:5878:base_quality;t_lod:28,7,0:339,358,0:60,60,0:37,0:-3.410e+00,-3.468e+00 MT 11752 . C . . END=11754 GT:DP:MIN_DP:TLOD ./.:7146:7144:-3.750e+00 ./.:6112:6037:-3.775e+00 MT 11755 . A . . . GT:DP:MIN_DP:TLOD ./.:7166:7155:-3.406e+00 ./.:6112:6037:-3.775e+00 -MT 11756 . A C, . base_quality;t_lod CONTQ=93.00;DP=13319 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7166,0,0:0.00,0.00:7166:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.406e+00,-3.406e+00 ././.:6034,31,0:1.972e-04,1.647e-04:6065:base_quality;t_lod:28,8,0:339,401,0:60,60,0:34,0:0.010,0.010,5.111e-03:1.362e-04,2.509e-03,0.997:-3.407e+00,-3.482e+00 +MT 11756 . A C, . base_quality;t_lod CONTQ=93.00;DP=13319 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7166,0,0:0.00,0.00:7166:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.406e+00,-3.406e+00 ././.:6034,31,0:1.972e-04,1.647e-04:6065:base_quality;t_lod:28,8,0:339,401,0:60,60,0:34,0:-3.407e+00,-3.482e+00 MT 11757 . A . . . GT:DP:MIN_DP:TLOD ./.:7141:7123:-3.777e+00 ./.:6755:6755:-2.546e+00 MT 11758 . C . . END=11759 GT:DP:MIN_DP:TLOD ./.:7141:7123:-3.777e+00 ./.:6863:6805:-3.766e+00 MT 11760 . A . . . GT:DP:MIN_DP:TLOD ./.:7137:7137:-3.415e+00 ./.:6863:6805:-3.766e+00 @@ -7548,56 +7544,56 @@ MT 12655 . T . . END=12659 GT:DP:MIN_DP:TLOD ./.:7165:7146:-3.828e+00 MT 12660 . A . . . GT:DP:MIN_DP:TLOD ./.:7164:7164:-3.361e+00 ./.:7180:7122:-3.788e+00 MT 12661 . A . . END=12666 GT:DP:MIN_DP:TLOD ./.:7122:7083:-3.766e+00 ./.:7180:7122:-3.788e+00 MT 12667 . G . . END=12668 GT:DP:MIN_DP:TLOD ./.:7092:7080:-2.613e+00 ./.:7180:7122:-3.788e+00 -MT 12669 . C T, . base_quality;t_lod CONTQ=93.00;DP=13716 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7131,0,0:0.00,0.00:7131:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.608e+00,-3.608e+00 ././.:6437,3,0:1.541e-04,1.538e-04:6440:base_quality;t_lod:28,12,0:336,378,0:60,60,0:32,0:0.00,0.010,4.658e-04:1.039e-03,4.489e-05,0.999:-3.511e+00,-3.512e+00 -MT 12670 . C T, . base_quality;t_lod CONTQ=93.00;DP=13715 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7131,0,0:0.00,0.00:7131:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.608e+00,-3.608e+00 ././.:6441,3,0:1.886e-04,1.537e-04:6444:base_quality;t_lod:28,12,0:336,553,0:60,60,0:73,0:0.010,0.010,4.655e-04:2.219e-04,7.152e-05,1.000:-3.417e+00,-3.512e+00 -MT 12671 . C A, . base_quality;t_lod CONTQ=93.00;DP=13799 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7178,0,0:0.00,0.00:7178:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.318e+00,-3.318e+00 ././.:6437,6,0:1.955e-04,1.537e-04:6443:base_quality;t_lod:28,12,0:336,374,0:60,60,0:39,0:0.010,0.010,9.312e-04:1.126e-04,2.554e-04,1.000:-3.402e+00,-3.512e+00 -MT 12672 . A C, . base_quality;t_lod CONTQ=93.00;DP=13791 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7172,0,0:0.00,0.00:7172:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.613e+00,-3.613e+00 ././.:6433,12,0:1.597e-04,1.537e-04:6445:base_quality;t_lod:29,8,0:336,409,0:60,60,0:31,0:0.010,0.010,1.862e-03:1.233e-04,4.464e-04,0.999:-3.496e+00,-3.512e+00 -MT 12673 . A C, . base_quality;t_lod CONTQ=93.00;DP=13771 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.433e+00,-3.433e+00 ././.:6413,34,0:2.433e-04,1.541e-04:6447:base_quality;t_lod:28,8,0:336,389,0:60,60,0:34,0:0.010,0.010,5.274e-03:7.246e-04,1.942e-04,0.999:-3.305e+00,-3.511e+00 +MT 12669 . C T, . base_quality;t_lod CONTQ=93.00;DP=13716 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7131,0,0:0.00,0.00:7131:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.608e+00,-3.608e+00 ././.:6437,3,0:1.541e-04,1.538e-04:6440:base_quality;t_lod:28,12,0:336,378,0:60,60,0:32,0:-3.511e+00,-3.512e+00 +MT 12670 . C T, . base_quality;t_lod CONTQ=93.00;DP=13715 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7131,0,0:0.00,0.00:7131:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.608e+00,-3.608e+00 ././.:6441,3,0:1.886e-04,1.537e-04:6444:base_quality;t_lod:28,12,0:336,553,0:60,60,0:73,0:-3.417e+00,-3.512e+00 +MT 12671 . C A, . base_quality;t_lod CONTQ=93.00;DP=13799 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7178,0,0:0.00,0.00:7178:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.318e+00,-3.318e+00 ././.:6437,6,0:1.955e-04,1.537e-04:6443:base_quality;t_lod:28,12,0:336,374,0:60,60,0:39,0:-3.402e+00,-3.512e+00 +MT 12672 . A C, . base_quality;t_lod CONTQ=93.00;DP=13791 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7172,0,0:0.00,0.00:7172:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.613e+00,-3.613e+00 ././.:6433,12,0:1.597e-04,1.537e-04:6445:base_quality;t_lod:29,8,0:336,409,0:60,60,0:31,0:-3.496e+00,-3.512e+00 +MT 12673 . A C, . base_quality;t_lod CONTQ=93.00;DP=13771 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7151,0,0:0.00,0.00:7151:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.433e+00,-3.433e+00 ././.:6413,34,0:2.433e-04,1.541e-04:6447:base_quality;t_lod:28,8,0:336,389,0:60,60,0:34,0:-3.305e+00,-3.511e+00 MT 12674 . A . . END=12678 GT:DP:MIN_DP:TLOD ./.:7147:7140:-3.764e+00 ./.:6598:6593:-3.805e+00 MT 12679 . A . . . GT:DP:MIN_DP:TLOD ./.:7139:7123:-3.312e+00 ./.:6598:6593:-3.805e+00 -MT 12680 . A C, . base_quality;t_lod CONTQ=93.00;DP=13764 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7139,0,0:0.00,0.00:7139:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.312e+00,-3.312e+00 ././.:6438,19,0:1.705e-04,1.536e-04:6457:base_quality;t_lod:28,7,0:335,374,0:60,60,0:22,0:0.010,0.010,2.943e-03:2.687e-04,2.537e-04,0.999:-3.468e+00,-3.513e+00 +MT 12680 . A C, . base_quality;t_lod CONTQ=93.00;DP=13764 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7139,0,0:0.00,0.00:7139:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.312e+00,-3.312e+00 ././.:6438,19,0:1.705e-04,1.536e-04:6457:base_quality;t_lod:28,7,0:335,374,0:60,60,0:22,0:-3.468e+00,-3.513e+00 MT 12681 . T . . END=12683 GT:DP:MIN_DP:TLOD ./.:7127:7124:-3.745e+00 ./.:6606:6586:-3.792e+00 -MT 12684 . G A, . t_lod CONTQ=93.00;DP=13726 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.395e+00,-3.395e+00 ././.:6451,16,0:1.466e-03,1.532e-04:6467:t_lod:28,28,0:336,280,0:60,60,0:21,0:0.010,0.010,2.474e-03:3.248e-04,2.286e-04,0.999:0.415,-3.514e+00 +MT 12684 . G A, . t_lod CONTQ=93.00;DP=13726 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.395e+00,-3.395e+00 ././.:6451,16,0:1.466e-03,1.532e-04:6467:t_lod:28,28,0:336,280,0:60,60,0:21,0:0.415,-3.514e+00 MT 12685 . T . . END=12686 GT:DP:MIN_DP:TLOD ./.:7139:7125:-3.551e+00 ./.:6622:6622:-3.813e+00 MT 12687 . C . . . GT:DP:MIN_DP:TLOD ./.:7150:7150:-3.302e+00 ./.:6622:6622:-3.813e+00 -MT 12688 . T G, . base_quality;t_lod CONTQ=93.00;DP=13833 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7157,0,0:0.00,0.00:7157:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.760e+00,-3.760e+00 ././.:6474,18,0:1.932e-04,1.526e-04:6492:base_quality;t_lod:29,5,0:336,351,0:60,60,0:31,0:0.010,0.010,2.773e-03:4.895e-04,1.692e-04,0.999:-3.412e+00,-3.515e+00 +MT 12688 . T G, . base_quality;t_lod CONTQ=93.00;DP=13833 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7157,0,0:0.00,0.00:7157:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.760e+00,-3.760e+00 ././.:6474,18,0:1.932e-04,1.526e-04:6492:base_quality;t_lod:29,5,0:336,351,0:60,60,0:31,0:-3.412e+00,-3.515e+00 MT 12689 . T . . END=12690 GT:DP:MIN_DP:TLOD ./.:7157:7151:-3.760e+00 ./.:6641:6635:-3.815e+00 MT 12691 . A . . . GT:DP:MIN_DP:TLOD ./.:7158:7158:-3.325e+00 ./.:6641:6635:-3.815e+00 MT 12692 . A . . . GT:DP:MIN_DP:TLOD ./.:7147:7147:-3.662e+00 ./.:6641:6635:-3.815e+00 MT 12693 . A . . . GT:DP:MIN_DP:TLOD ./.:7132:7132:-3.399e+00 ./.:6641:6635:-3.815e+00 MT 12694 . T . . . GT:DP:MIN_DP:TLOD ./.:7144:7135:-3.798e+00 ./.:6641:6635:-3.815e+00 -MT 12695 . A C, . base_quality;t_lod CONTQ=93.00;DP=13839 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7144,0,0:0.00,0.00:7144:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.798e+00,-3.798e+00 ././.:6479,30,0:2.559e-04,1.523e-04:6509:base_quality;t_lod:29,8,0:335,366,0:60,60,0:23,0:0.010,0.010,4.609e-03:1.262e-04,3.006e-03,0.997:-3.295e+00,-3.516e+00 +MT 12695 . A C, . base_quality;t_lod CONTQ=93.00;DP=13839 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7144,0,0:0.00,0.00:7144:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.798e+00,-3.798e+00 ././.:6479,30,0:2.559e-04,1.523e-04:6509:base_quality;t_lod:29,8,0:335,366,0:60,60,0:23,0:-3.295e+00,-3.516e+00 MT 12696 . T . . . GT:DP:MIN_DP:TLOD ./.:7144:7135:-3.798e+00 ./.:6618:6618:-3.812e+00 -MT 12697 . C A, . base_quality;t_lod CONTQ=93.00;DP=13830 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7144,0,0:0.00,0.00:7144:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.798e+00,-3.798e+00 ././.:6500,5,0:1.868e-04,1.522e-04:6505:base_quality;t_lod:28,11,0:336,316,0:60,60,0:38,0:0.010,0.010,7.686e-04:5.354e-04,6.613e-05,0.999:-3.422e+00,-3.517e+00 +MT 12697 . C A, . base_quality;t_lod CONTQ=93.00;DP=13830 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7144,0,0:0.00,0.00:7144:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.798e+00,-3.798e+00 ././.:6500,5,0:1.868e-04,1.522e-04:6505:base_quality;t_lod:28,11,0:336,316,0:60,60,0:38,0:-3.422e+00,-3.517e+00 MT 12698 . T . . . GT:DP:MIN_DP:TLOD ./.:7144:7135:-3.798e+00 ./.:6635:6635:-3.786e+00 MT 12699 . A . . . GT:DP:MIN_DP:TLOD ./.:7136:7136:-2.915e+00 ./.:6606:6606:-3.440e+00 MT 12700 . C . . END=12701 GT:DP:MIN_DP:TLOD ./.:7150:7083:-3.775e+00 ./.:6603:6591:-3.815e+00 -MT 12702 . C A, . base_quality;t_lod CONTQ=93.00;DP=13777 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7150,0,0:0.00,0.00:7150:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.775e+00,-3.775e+00 ././.:6485,9,0:2.104e-04,1.524e-04:6494:base_quality;t_lod:28,14,0:336,317,0:60,60,0:24,0:0.00,0.010,1.386e-03:0.050,4.604e-05,0.950:-3.365e+00,-3.516e+00 -MT 12703 . A T, . base_quality;t_lod CONTQ=93.00;DP=13849 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.104e+00,-3.104e+00 ././.:6453,7,0:1.554e-04,1.529e-04:6460:base_quality;t_lod:28,11,0:336,376,0:60,60,0:39,0:0.010,0.010,1.084e-03:8.874e-05,5.599e-04,0.999:-3.508e+00,-3.515e+00 +MT 12702 . C A, . base_quality;t_lod CONTQ=93.00;DP=13777 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7150,0,0:0.00,0.00:7150:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.775e+00,-3.775e+00 ././.:6485,9,0:2.104e-04,1.524e-04:6494:base_quality;t_lod:28,14,0:336,317,0:60,60,0:24,0:-3.365e+00,-3.516e+00 +MT 12703 . A T, . base_quality;t_lod CONTQ=93.00;DP=13849 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.104e+00,-3.104e+00 ././.:6453,7,0:1.554e-04,1.529e-04:6460:base_quality;t_lod:28,11,0:336,376,0:60,60,0:39,0:-3.508e+00,-3.515e+00 MT 12704 . T . . . GT:DP:MIN_DP:TLOD ./.:7131:7131:-3.782e+00 ./.:6612:6612:-3.481e+00 -MT 12705 . C T, . PASS CONTQ=93.00;DP=13813 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7145,0,0:0.00,0.00:7145:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.948e+00,-1.948e+00 ././.:31,6466,0:0.997,1.527e-04:6497:28,29,0:303,336,0:60,60,0:36,0:0.990,0.990,0.995:0.015,0.052,0.933:20935.18,-3.515e+00 +MT 12705 . C T, . PASS CONTQ=93.00;DP=13813 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7145,0,0:0.00,0.00:7145:.,.,.:.,.,.:.,.,.:.,.:-1.948e+00,-1.948e+00 ././.:31,6466,0:0.997,1.527e-04:6497:28,29,0:303,336,0:60,60,0:36,0:20935.18,-3.515e+00 MT 12706 . T . . . GT:DP:MIN_DP:TLOD ./.:7172:7172:-3.475e+00 ./.:6626:6626:-3.677e+00 -MT 12707 . T G, . base_quality;t_lod CONTQ=93.00;DP=13818 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7168,0,0:0.00,0.00:7168:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.823e+00,-3.823e+00 ././.:6462,12,0:1.705e-04,1.528e-04:6474:base_quality;t_lod:28,7,0:336,382,0:60,60,0:26,0:0.010,0.010,1.854e-03:5.920e-04,1.077e-04,0.999:-3.468e+00,-3.515e+00 +MT 12707 . T G, . base_quality;t_lod CONTQ=93.00;DP=13818 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7168,0,0:0.00,0.00:7168:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.823e+00,-3.823e+00 ././.:6462,12,0:1.705e-04,1.528e-04:6474:base_quality;t_lod:28,7,0:336,382,0:60,60,0:26,0:-3.468e+00,-3.515e+00 MT 12708 . C . . END=12710 GT:DP:MIN_DP:TLOD ./.:7168:7152:-3.823e+00 ./.:6608:6576:-3.803e+00 MT 12711 . A . . . GT:DP:MIN_DP:TLOD ./.:7146:7146:-2.494e+00 ./.:6608:6576:-3.803e+00 MT 12712 . A . . . GT:DP:MIN_DP:TLOD ./.:7108:7108:-3.172e+00 ./.:6608:6576:-3.803e+00 -MT 12713 . T A, . base_quality;t_lod CONTQ=93.00;DP=13722 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7121,0,0:0.00,0.00:7121:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.727e+00,-3.727e+00 ././.:6466,5,0:1.536e-04,1.530e-04:6471:base_quality;t_lod:29,13,0:337,383,0:60,60,0:21,0:0.010,0.010,7.727e-04:9.894e-05,2.041e-04,1.000:-3.513e+00,-3.514e+00 +MT 12713 . T A, . base_quality;t_lod CONTQ=93.00;DP=13722 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7121,0,0:0.00,0.00:7121:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.727e+00,-3.727e+00 ././.:6466,5,0:1.536e-04,1.530e-04:6471:base_quality;t_lod:29,13,0:337,383,0:60,60,0:21,0:-3.513e+00,-3.514e+00 MT 12714 . T . . END=12716 GT:DP:MIN_DP:TLOD ./.:7121:7064:-3.727e+00 ./.:6570:6547:-3.808e+00 MT 12717 . C . . . GT:DP:MIN_DP:TLOD ./.:7125:7125:-3.101e+00 ./.:6570:6547:-3.808e+00 -MT 12718 . A AGAC, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=13746 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7113,0,0:0.00,0.00:7113:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.083e+00,-2.083e+00 .|.|.:6517,0,0:1.522e-04,1.522e-04:6517:base_quality;contamination;mapping_quality;t_lod:29,0,0:337,0,0:60,0,0:0,0:0|1:12718_A_AGAC:12718:0.00,0.00,0.00:4.671e-05,5.013e-05,1.000:-3.517e+00,-3.517e+00 +MT 12718 . A AGAC, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=13746 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7113,0,0:0.00,0.00:7113:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.083e+00,-2.083e+00 .|.|.:6517,0,0:1.522e-04,1.522e-04:6517:base_quality;contamination;mapping_quality;t_lod:29,0,0:337,0,0:60,0,0:0,0:0|1:12718_A_AGAC:12718:-3.517e+00,-3.517e+00 MT 12719 . T . . . GT:DP:MIN_DP:TLOD ./.:7116:7116:-3.268e+00 ./.:6589:6589:-3.731e+00 -MT 12720 . A AAT, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=13664 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7101,0,0:0.00,0.00:7101:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.767e+00,-3.767e+00 .|.|.:6511,0,0:1.523e-04,1.523e-04:6511:base_quality;contamination;mapping_quality;t_lod:29,0,0:337,0,0:60,0,0:0,0:0|1:12718_A_AGAC:12718:0.00,0.00,0.00:4.678e-05,5.015e-05,1.000:-3.516e+00,-3.516e+00 +MT 12720 . A AAT, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=13664 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7101,0,0:0.00,0.00:7101:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.767e+00,-3.767e+00 .|.|.:6511,0,0:1.523e-04,1.523e-04:6511:base_quality;contamination;mapping_quality;t_lod:29,0,0:337,0,0:60,0,0:0,0:0|1:12718_A_AGAC:12718:-3.516e+00,-3.516e+00 MT 12721 . C . . END=12722 GT:DP:MIN_DP:TLOD ./.:7101:7032:-3.767e+00 ./.:6549:6530:-3.797e+00 -MT 12723 . A C, . base_quality;t_lod CONTQ=93.00;DP=13651 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7101,0,0:0.00,0.00:7101:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.767e+00,-3.767e+00 ././.:6428,19,0:2.269e-04,1.540e-04:6447:base_quality;t_lod:29,9,0:337,425,0:60,60,0:12,0:0.010,0.010,2.947e-03:4.068e-04,1.844e-04,0.999:-3.340e+00,-3.512e+00 +MT 12723 . A C, . base_quality;t_lod CONTQ=93.00;DP=13651 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7101,0,0:0.00,0.00:7101:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.767e+00,-3.767e+00 ././.:6428,19,0:2.269e-04,1.540e-04:6447:base_quality;t_lod:29,9,0:337,425,0:60,60,0:12,0:-3.340e+00,-3.512e+00 MT 12724 . A . . END=12727 GT:DP:MIN_DP:TLOD ./.:7101:7032:-3.767e+00 ./.:6563:6555:-3.773e+00 -MT 12728 . T G, . base_quality;t_lod CONTQ=93.00;DP=13730 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7121,0,0:0.00,0.00:7121:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.050e+00,-3.050e+00 ././.:6510,6,0:1.553e-04,1.526e-04:6516:base_quality;t_lod:29,8,0:338,324,0:60,60,0:40,0:0.010,0.010,9.208e-04:8.995e-05,3.619e-04,1.000:-3.508e+00,-3.515e+00 +MT 12728 . T G, . base_quality;t_lod CONTQ=93.00;DP=13730 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7121,0,0:0.00,0.00:7121:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.050e+00,-3.050e+00 ././.:6510,6,0:1.553e-04,1.526e-04:6516:base_quality;t_lod:29,8,0:338,324,0:60,60,0:40,0:-3.508e+00,-3.515e+00 MT 12729 . A . . . GT:DP:MIN_DP:TLOD ./.:7096:7096:-3.730e+00 ./.:6574:6574:-3.803e+00 -MT 12730 . G T, . base_quality;t_lod CONTQ=93.00;DP=13655 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7042,0,0:0.00,0.00:7042:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.324e+00,-3.324e+00 ././.:6411,20,0:1.889e-04,1.543e-04:6431:base_quality;t_lod:28,12,0:338,355,0:60,60,0:16,0:0.010,0.010,3.110e-03:0.674,1.852e-05,0.326:-3.424e+00,-3.511e+00 +MT 12730 . G T, . base_quality;t_lod CONTQ=93.00;DP=13655 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7042,0,0:0.00,0.00:7042:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.324e+00,-3.324e+00 ././.:6411,20,0:1.889e-04,1.543e-04:6431:base_quality;t_lod:28,12,0:338,355,0:60,60,0:16,0:-3.424e+00,-3.511e+00 MT 12731 . T . . END=12734 GT:DP:MIN_DP:TLOD ./.:7118:7084:-3.786e+00 ./.:6569:6525:-3.801e+00 -MT 12735 . C A, . base_quality;t_lod CONTQ=93.00;DP=13561 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7027,0,0:0.00,0.00:7027:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.998e+00,-2.998e+00 ././.:6405,13,0:2.522e-04,1.546e-04:6418:base_quality;t_lod:25,13,0:338,300,0:60,60,0:28,0:0.010,0.010,2.026e-03:3.639e-04,1.540e-04,0.999:-3.274e+00,-3.510e+00 +MT 12735 . C A, . base_quality;t_lod CONTQ=93.00;DP=13561 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7027,0,0:0.00,0.00:7027:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.998e+00,-2.998e+00 ././.:6405,13,0:2.522e-04,1.546e-04:6418:base_quality;t_lod:25,13,0:338,300,0:60,60,0:28,0:-3.274e+00,-3.510e+00 MT 12736 . G . . . GT:DP:MIN_DP:TLOD ./.:7027:6969:-2.998e+00 ./.:6530:6414:-3.812e+00 MT 12737 . C . . END=12740 GT:DP:MIN_DP:TLOD ./.:7145:7095:-3.816e+00 ./.:6530:6414:-3.812e+00 -MT 12741 . C A, . base_quality;t_lod CONTQ=93.00;DP=13683 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7145,0,0:0.00,0.00:7145:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.816e+00,-3.816e+00 ././.:6420,7,0:1.846e-04,1.543e-04:6427:base_quality;t_lod:28,11,0:338,396,0:60,60,0:41,0:0.010,0.010,1.089e-03:4.211e-04,1.021e-04,0.999:-3.432e+00,-3.511e+00 +MT 12741 . C A, . base_quality;t_lod CONTQ=93.00;DP=13683 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7145,0,0:0.00,0.00:7145:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.816e+00,-3.816e+00 ././.:6420,7,0:1.846e-04,1.543e-04:6427:base_quality;t_lod:28,11,0:338,396,0:60,60,0:41,0:-3.432e+00,-3.511e+00 MT 12742 . A . . END=12743 GT:DP:MIN_DP:TLOD ./.:7145:7095:-3.816e+00 ./.:7168:7121:-3.820e+00 MT 12744 . C . . . GT:DP:MIN_DP:TLOD ./.:7138:7138:-3.197e+00 ./.:7168:7121:-3.820e+00 MT 12745 . C . . END=12746 GT:DP:MIN_DP:TLOD ./.:7162:7153:-3.812e+00 ./.:7168:7121:-3.820e+00 @@ -7694,27 +7690,27 @@ MT 12970 . C . . . GT:DP:MIN_DP:TLOD ./.:7246:7246:-3.035e+00 ./.:7239 MT 12971 . C . . . GT:DP:MIN_DP:TLOD ./.:7202:7202:-3.714e+00 ./.:7239:7200:-3.744e+00 MT 12972 . A . . . GT:DP:MIN_DP:TLOD ./.:7152:7152:-2.646e+00 ./.:7164:7164:-3.366e+00 MT 12973 . C . . END=12977 GT:DP:MIN_DP:TLOD ./.:7120:6976:-3.804e+00 ./.:7145:7139:-3.848e+00 -MT 12978 . A C, . base_quality;t_lod CONTQ=93.00;DP=13787 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 ././.:6574,57,0:1.754e-04,1.504e-04:6631:base_quality;t_lod:29,3,0:341,390,0:60,60,0:22,0:0.010,0.010,8.596e-03:5.847e-07,0.992,7.765e-03:-3.456e+00,-3.522e+00 -MT 12979 . G A, . base_quality;t_lod CONTQ=93.00;DP=13787 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.804e+00,-3.804e+00 ././.:6613,4,0:1.504e-04,1.500e-04:6617:base_quality;t_lod:28,12,0:342,357,0:60,60,0:36,0:0.00,0.010,6.045e-04:1.524e-03,4.643e-05,0.998:-3.522e+00,-3.523e+00 +MT 12978 . A C, . base_quality;t_lod CONTQ=93.00;DP=13787 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 ././.:6574,57,0:1.754e-04,1.504e-04:6631:base_quality;t_lod:29,3,0:341,390,0:60,60,0:22,0:-3.456e+00,-3.522e+00 +MT 12979 . G A, . base_quality;t_lod CONTQ=93.00;DP=13787 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7120,0,0:0.00,0.00:7120:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.804e+00,-3.804e+00 ././.:6613,4,0:1.504e-04,1.500e-04:6617:base_quality;t_lod:28,12,0:342,357,0:60,60,0:36,0:-3.522e+00,-3.523e+00 MT 12980 . G . . . GT:DP:MIN_DP:TLOD ./.:6942:6942:-3.487e+00 ./.:6743:6578:-3.826e+00 MT 12981 . C . . END=12985 GT:DP:MIN_DP:TLOD ./.:7150:7073:-3.841e+00 ./.:6743:6578:-3.826e+00 -MT 12986 . T C, . base_quality;t_lod CONTQ=93.00;DP=13941 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7134,0,0:0.00,0.00:7134:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.174e+00,-3.174e+00 ././.:6587,41,0:2.240e-04,1.501e-04:6628:base_quality;t_lod:28,2,0:342,351,0:60,60,0:4,0:0.010,0.010,6.186e-03:9.504e-04,2.278e-04,0.999:-3.354e+00,-3.523e+00 +MT 12986 . T C, . base_quality;t_lod CONTQ=93.00;DP=13941 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7134,0,0:0.00,0.00:7134:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.174e+00,-3.174e+00 ././.:6587,41,0:2.240e-04,1.501e-04:6628:base_quality;t_lod:28,2,0:342,351,0:60,60,0:4,0:-3.354e+00,-3.523e+00 MT 12987 . C . . END=12996 GT:DP:MIN_DP:TLOD ./.:7155:7077:-3.845e+00 ./.:6760:6716:-3.831e+00 -MT 12997 . G T, . base_quality;t_lod CONTQ=93.00;DP=13824 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7155,0,0:0.00,0.00:7155:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.845e+00,-3.845e+00 ././.:6562,5,0:1.781e-04,1.510e-04:6567:base_quality;t_lod:28,12,0:344,402,0:60,60,0:67,0:0.010,0.010,7.614e-04:1.016e-04,1.867e-04,1.000:-3.445e+00,-3.520e+00 +MT 12997 . G T, . base_quality;t_lod CONTQ=93.00;DP=13824 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7155,0,0:0.00,0.00:7155:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.845e+00,-3.845e+00 ././.:6562,5,0:1.781e-04,1.510e-04:6567:base_quality;t_lod:28,12,0:344,402,0:60,60,0:67,0:-3.445e+00,-3.520e+00 MT 12998 . C . . END=12999 GT:DP:MIN_DP:TLOD ./.:7155:7077:-3.845e+00 ./.:6724:6718:-3.827e+00 -MT 13000 . G T, . base_quality;t_lod CONTQ=93.00;DP=13803 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7155,0,0:0.00,0.00:7155:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.845e+00,-3.845e+00 ././.:6533,9,0:1.664e-04,1.515e-04:6542:base_quality;t_lod:28,12,0:343,351,0:60,60,0:40,0:0.010,0.010,1.376e-03:2.469e-04,1.492e-04,1.000:-3.478e+00,-3.519e+00 +MT 13000 . G T, . base_quality;t_lod CONTQ=93.00;DP=13803 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7155,0,0:0.00,0.00:7155:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.845e+00,-3.845e+00 ././.:6533,9,0:1.664e-04,1.515e-04:6542:base_quality;t_lod:28,12,0:343,351,0:60,60,0:40,0:-3.478e+00,-3.519e+00 MT 13001 . G . . END=13005 GT:DP:MIN_DP:TLOD ./.:7155:7077:-3.845e+00 ./.:6684:6643:-3.822e+00 MT 13006 . T . . . GT:DP:MIN_DP:TLOD ./.:7069:7069:-3.175e+00 ./.:6684:6643:-3.822e+00 MT 13007 . C . . END=13008 GT:DP:MIN_DP:TLOD ./.:7112:7096:-3.769e+00 ./.:6684:6643:-3.822e+00 MT 13009 . G . . . GT:DP:MIN_DP:TLOD ./.:7071:7071:-3.493e+00 ./.:6684:6643:-3.822e+00 -MT 13010 . C A, . base_quality;t_lod CONTQ=93.00;DP=13846 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7138,0,0:0.00,0.00:7138:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.824e+00,-3.824e+00 ././.:6527,9,0:1.555e-04,1.514e-04:6536:base_quality;t_lod:29,14,0:344,318,0:60,60,0:28,0:0.010,0.010,1.377e-03:1.395e-04,2.710e-04,1.000:-3.507e+00,-3.519e+00 +MT 13010 . C A, . base_quality;t_lod CONTQ=93.00;DP=13846 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7138,0,0:0.00,0.00:7138:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.824e+00,-3.824e+00 ././.:6527,9,0:1.555e-04,1.514e-04:6536:base_quality;t_lod:29,14,0:344,318,0:60,60,0:28,0:-3.507e+00,-3.519e+00 MT 13011 . C . . END=13012 GT:DP:MIN_DP:TLOD ./.:7138:7125:-3.824e+00 ./.:6679:6637:-3.789e+00 MT 13013 . A . . . GT:DP:MIN_DP:TLOD ./.:7100:7100:-3.462e+00 ./.:6679:6637:-3.789e+00 MT 13014 . A . . . GT:DP:MIN_DP:TLOD ./.:7042:7042:-3.645e+00 ./.:6679:6637:-3.789e+00 -MT 13015 . T C, . PASS CONTQ=93.00;DP=13734 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7027,0,0:0.00,0.00:7027:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.419e+00,-2.419e+00 ././.:44,6499,0:0.994,1.516e-04:6543:28,28,0:307,344,0:60,60,0:38,0:0.990,0.990,0.993:0.018,0.032,0.950:20404.45,-3.518e+00 +MT 13015 . T C, . PASS CONTQ=93.00;DP=13734 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7027,0,0:0.00,0.00:7027:.,.,.:.,.,.:.,.,.:.,.:-2.419e+00,-2.419e+00 ././.:44,6499,0:0.994,1.516e-04:6543:28,28,0:307,344,0:60,60,0:38,0:20404.45,-3.518e+00 MT 13016 . T . . . GT:DP:MIN_DP:TLOD ./.:7040:7040:-3.458e+00 ./.:6593:6454:-3.798e+00 MT 13017 . A . . END=13019 GT:DP:MIN_DP:TLOD ./.:6966:6823:-3.728e+00 ./.:6593:6454:-3.798e+00 -MT 13020 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=13611 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6938,0,0,0:0.00,0.00,0.00:6938:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.548e+00,-2.548e+00,-2.548e+00 ./././.:6407,7,17,0:1.550e-04,2.483e-04,1.515e-04:6431:base_quality;t_lod:28,13,6,0:343,342,406,0:60,60,60,0:23,13,0:0.010,0.010,2.646e-03:1.499e-04,6.475e-04,0.999:-3.333e+00,-3.109e+00,-3.343e+00 +MT 13020 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=13611 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6938,0,0,0:0.00,0.00,0.00:6938:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.548e+00,-2.548e+00,-2.548e+00 ./././.:6407,7,17,0:1.550e-04,2.483e-04,1.515e-04:6431:base_quality;t_lod:28,13,6,0:343,342,406,0:60,60,60,0:23,13,0:-3.333e+00,-3.109e+00,-3.343e+00 MT 13021 . C . . END=13024 GT:DP:MIN_DP:TLOD ./.:7075:7021:-3.845e+00 ./.:7144:7114:-3.847e+00 MT 13025 . A . . . GT:DP:MIN_DP:TLOD ./.:7055:7055:-2.073e+00 ./.:7097:7097:-2.955e+00 MT 13026 . C . . END=13031 GT:DP:MIN_DP:TLOD ./.:7132:6973:-3.848e+00 ./.:7197:7033:-3.799e+00 @@ -7849,38 +7845,38 @@ MT 13276 . A . . END=13280 GT:DP:MIN_DP:TLOD ./.:7165:7072:-3.821e+00 MT 13281 . T . . . GT:DP:MIN_DP:TLOD ./.:7165:7072:-3.821e+00 ./.:7161:7161:-2.933e+00 MT 13282 . A . . END=13287 GT:DP:MIN_DP:TLOD ./.:7165:7072:-3.821e+00 ./.:7174:7132:-3.829e+00 MT 13288 . G . . . GT:DP:MIN_DP:TLOD ./.:7165:7072:-3.821e+00 ./.:7057:7057:-2.974e+00 -MT 13289 . G T, . base_quality;t_lod CONTQ=93.00;DP=13861 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6569,6,0:1.677e-04,1.506e-04:6575:base_quality;t_lod:28,13,0:343,289,0:60,60,0:13,0:0.010,0.010,9.125e-04:3.863e-04,8.577e-05,1.000:-3.474e+00,-3.521e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 +MT 13289 . G T, . base_quality;t_lod CONTQ=93.00;DP=13861 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6569,6,0:1.677e-04,1.506e-04:6575:base_quality;t_lod:28,13,0:343,289,0:60,60,0:13,0:-3.474e+00,-3.521e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.814e+00,-3.814e+00 MT 13290 . C . . END=13295 GT:DP:MIN_DP:TLOD ./.:6646:6634:-3.807e+00 ./.:7177:7095:-3.814e+00 -MT 13296 . C A, . base_quality;t_lod CONTQ=93.00;DP=13863 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6576,4,0:1.839e-04,1.504e-04:6580:base_quality;t_lod:28,15,0:343,406,0:60,60,0:13,0:0.010,0.00,6.079e-04:5.076e-05,1.099e-03,0.999:-3.429e+00,-3.522e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 +MT 13296 . C A, . base_quality;t_lod CONTQ=93.00;DP=13863 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6576,4,0:1.839e-04,1.504e-04:6580:base_quality;t_lod:28,15,0:343,406,0:60,60,0:13,0:-3.429e+00,-3.522e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.814e+00,-3.814e+00 MT 13297 . C . . END=13298 GT:DP:MIN_DP:TLOD ./.:6669:6668:-3.794e+00 ./.:7177:7095:-3.814e+00 -MT 13299 . A C, . base_quality;t_lod CONTQ=93.00;DP=13874 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6558,35,0:1.545e-04,1.507e-04:6593:base_quality;t_lod:28,7,0:343,346,0:60,60,0:36,0:0.010,0.010,5.309e-03:8.562e-05,0.046,0.954:-3.510e+00,-3.521e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 +MT 13299 . A C, . base_quality;t_lod CONTQ=93.00;DP=13874 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6558,35,0:1.545e-04,1.507e-04:6593:base_quality;t_lod:28,7,0:343,346,0:60,60,0:36,0:-3.510e+00,-3.521e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.814e+00,-3.814e+00 MT 13300 . C . . . GT:DP:MIN_DP:TLOD ./.:6643:6643:-3.723e+00 ./.:7177:7095:-3.814e+00 -MT 13301 . C A, . base_quality;t_lod CONTQ=93.00;DP=13868 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6598,5,0:2.115e-04,1.501e-04:6603:base_quality;t_lod:28,13,0:343,278,0:60,60,0:30,0:0.010,0.010,7.572e-04:1.110e-04,1.636e-04,1.000:-3.367e+00,-3.522e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 +MT 13301 . C A, . base_quality;t_lod CONTQ=93.00;DP=13868 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6598,5,0:2.115e-04,1.501e-04:6603:base_quality;t_lod:28,13,0:343,278,0:60,60,0:30,0:-3.367e+00,-3.522e+00 ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.814e+00,-3.814e+00 MT 13302 . A . . END=13303 GT:DP:MIN_DP:TLOD ./.:6634:6632:-3.822e+00 ./.:7177:7095:-3.814e+00 -MT 13304 . A C, . base_quality;t_lod CONTQ=93.00;DP=13897 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6506,70,0:3.299e-04,1.518e-04:6576:base_quality;t_lod:28,7,0:343,366,0:60,60,0:26,0:0.010,0.010,0.011:3.784e-16,1.000,6.900e-12:-3.183e+00,-3.518e+00 ./.:7131,0,0:0.00,0.00:7131:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:0.351,0.351 +MT 13304 . A C, . base_quality;t_lod CONTQ=93.00;DP=13897 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6506,70,0:3.299e-04,1.518e-04:6576:base_quality;t_lod:28,7,0:343,366,0:60,60,0:26,0:-3.183e+00,-3.518e+00 ./.:7131,0,0:0.00,0.00:7131:PASS:.,.,.:.,.,.:.,.,.:.,.:0.351,0.351 MT 13305 . C . . END=13310 GT:DP:MIN_DP:TLOD ./.:6633:6585:-3.818e+00 ./.:7139:7027:-3.835e+00 -MT 13311 . A C, . base_quality;t_lod CONTQ=93.00;DP=13796 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6565,26,0:2.403e-04,1.506e-04:6591:base_quality;t_lod:29,7,0:342,421,0:60,60,0:17,0:0.010,0.010,3.945e-03:1.028e-04,6.365e-03,0.994:-3.324e+00,-3.521e+00 ./.:7139,0,0:0.00,0.00:7139:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.835e+00,-3.835e+00 +MT 13311 . A C, . base_quality;t_lod CONTQ=93.00;DP=13796 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6565,26,0:2.403e-04,1.506e-04:6591:base_quality;t_lod:29,7,0:342,421,0:60,60,0:17,0:-3.324e+00,-3.521e+00 ./.:7139,0,0:0.00,0.00:7139:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.835e+00,-3.835e+00 MT 13312 . T . . . GT:DP:MIN_DP:TLOD ./.:6618:6618:-3.630e+00 ./.:7139:7027:-3.835e+00 -MT 13313 . T G, . base_quality;t_lod CONTQ=93.00;DP=13891 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6553,24,0:1.602e-04,1.509e-04:6577:base_quality;t_lod:28,5,0:343,336,0:60,60,0:28,0:0.010,0.010,3.649e-03:1.944e-04,4.928e-04,0.999:-3.495e+00,-3.520e+00 ./.:7116,0,0:0.00,0.00:7116:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.426e+00,-3.426e+00 +MT 13313 . T G, . base_quality;t_lod CONTQ=93.00;DP=13891 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6553,24,0:1.602e-04,1.509e-04:6577:base_quality;t_lod:28,5,0:343,336,0:60,60,0:28,0:-3.495e+00,-3.520e+00 ./.:7116,0,0:0.00,0.00:7116:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.426e+00,-3.426e+00 MT 13314 . C . . END=13320 GT:DP:MIN_DP:TLOD ./.:6655:6625:-3.809e+00 ./.:7157:7115:-3.830e+00 MT 13321 . A . . . GT:DP:MIN_DP:TLOD ./.:6655:6625:-3.809e+00 ./.:7163:7163:-2.262e+00 MT 13322 . T . . END=13325 GT:DP:MIN_DP:TLOD ./.:6655:6625:-3.809e+00 ./.:7142:7050:-3.794e+00 -MT 13326 . T C, . PASS CONTQ=93.00;DP=13978 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:11,6649,0:0.999,1.489e-04:6660:27,29,0:300,342,0:60,60,0:37,0:0.990,0.990,0.998:0.037,0.019,0.944:21618.17,-3.526e+00 ./.:7151,0,0:0.00,0.00:7151:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.56,1.56 +MT 13326 . T C, . PASS CONTQ=93.00;DP=13978 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:11,6649,0:0.999,1.489e-04:6660:27,29,0:300,342,0:60,60,0:37,0:21618.17,-3.526e+00 ./.:7151,0,0:0.00,0.00:7151:.,.,.:.,.,.:.,.,.:.,.:1.56,1.56 MT 13327 . A . . END=13330 GT:DP:MIN_DP:TLOD ./.:6656:6515:-3.823e+00 ./.:7138:7120:-3.739e+00 MT 13331 . A . . . GT:DP:MIN_DP:TLOD ./.:6656:6515:-3.823e+00 ./.:7117:7117:-3.357e+00 MT 13332 . C . . END=13333 GT:DP:MIN_DP:TLOD ./.:6656:6515:-3.823e+00 ./.:7027:6923:-3.821e+00 MT 13334 . C . . . GT:DP:MIN_DP:TLOD ./.:6656:6515:-3.823e+00 ./.:7126:7126:-3.472e+00 MT 13335 . C . . . GT:DP:MIN_DP:TLOD ./.:6656:6515:-3.823e+00 ./.:7133:7123:-3.826e+00 -MT 13336 . T C, . base_quality;t_lod CONTQ=93.00;DP=13915 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6590,21,0:2.348e-04,1.501e-04:6611:base_quality;t_lod:29,5,0:342,393,0:60,60,0:16,0:0.010,0.010,3.177e-03:2.053e-03,1.011e-04,0.998:-3.331e+00,-3.523e+00 ./.:7133,0,0:0.00,0.00:7133:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.826e+00,-3.826e+00 +MT 13336 . T C, . base_quality;t_lod CONTQ=93.00;DP=13915 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6590,21,0:2.348e-04,1.501e-04:6611:base_quality;t_lod:29,5,0:342,393,0:60,60,0:16,0:-3.331e+00,-3.523e+00 ./.:7133,0,0:0.00,0.00:7133:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.826e+00,-3.826e+00 MT 13337 . T . . END=13339 GT:DP:MIN_DP:TLOD ./.:6634:6583:-3.818e+00 ./.:7133:7123:-3.826e+00 MT 13340 . T . . . GT:DP:MIN_DP:TLOD ./.:6634:6583:-3.818e+00 ./.:7161:7161:-3.457e+00 MT 13341 . C . . END=13348 GT:DP:MIN_DP:TLOD ./.:6634:6583:-3.818e+00 ./.:7156:7062:-3.853e+00 -MT 13349 . T G, . base_quality;t_lod CONTQ=93.00;DP=13809 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6562,9,0:1.518e-04,1.509e-04:6571:base_quality;t_lod:29,8,0:341,395,0:60,60,0:47,0:0.010,0.010,1.370e-03:5.603e-04,9.562e-05,0.999:-3.518e+00,-3.520e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.853e+00,-3.853e+00 +MT 13349 . T G, . base_quality;t_lod CONTQ=93.00;DP=13809 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6562,9,0:1.518e-04,1.509e-04:6571:base_quality;t_lod:29,8,0:341,395,0:60,60,0:47,0:-3.518e+00,-3.520e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.853e+00,-3.853e+00 MT 13350 . A . . END=13354 GT:DP:MIN_DP:TLOD ./.:6602:6592:-3.814e+00 ./.:7156:7062:-3.853e+00 -MT 13355 . T G, . base_quality;t_lod CONTQ=93.00;DP=13799 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6542,15,0:1.940e-04,1.513e-04:6557:base_quality;t_lod:29,7,0:341,342,0:60,60,0:25,0:0.010,0.010,2.288e-03:9.495e-05,2.004e-03,0.998:-3.411e+00,-3.519e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.853e+00,-3.853e+00 -MT 13356 . T A, . base_quality;t_lod CONTQ=93.00;DP=13795 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6549,2,0:1.514e-04,1.512e-04:6551:base_quality;t_lod:29,18,0:341,299,0:60,60,0:16,0:0.010,0.010,3.053e-04:1.080e-04,1.030e-04,1.000:-3.519e+00,-3.519e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.853e+00,-3.853e+00 +MT 13355 . T G, . base_quality;t_lod CONTQ=93.00;DP=13799 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6542,15,0:1.940e-04,1.513e-04:6557:base_quality;t_lod:29,7,0:341,342,0:60,60,0:25,0:-3.411e+00,-3.519e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.853e+00,-3.853e+00 +MT 13356 . T A, . base_quality;t_lod CONTQ=93.00;DP=13795 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6549,2,0:1.514e-04,1.512e-04:6551:base_quality;t_lod:29,18,0:341,299,0:60,60,0:16,0:-3.519e+00,-3.519e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.853e+00,-3.853e+00 MT 13357 . A . . END=13360 GT:DP:MIN_DP:TLOD ./.:6610:6605:-3.818e+00 ./.:7156:7062:-3.853e+00 -MT 13361 . G T, . base_quality;t_lod CONTQ=93.00;DP=13781 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6526,10,0:2.095e-04,1.517e-04:6536:base_quality;t_lod:28,12,0:340,417,0:60,60,0:16,0:0.010,0.010,1.530e-03:0.010,5.609e-05,0.990:-3.378e+00,-3.518e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.853e+00,-3.853e+00 +MT 13361 . G T, . base_quality;t_lod CONTQ=93.00;DP=13781 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6526,10,0:2.095e-04,1.517e-04:6536:base_quality;t_lod:28,12,0:340,417,0:60,60,0:16,0:-3.378e+00,-3.518e+00 ./.:7156,0,0:0.00,0.00:7156:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.853e+00,-3.853e+00 MT 13362 . C . . . GT:DP:MIN_DP:TLOD ./.:7142:7084:-3.809e+00 ./.:7156:7062:-3.853e+00 MT 13363 . T . . . GT:DP:MIN_DP:TLOD ./.:7142:7084:-3.809e+00 ./.:7125:7125:-3.472e+00 MT 13364 . C . . END=13365 GT:DP:MIN_DP:TLOD ./.:7142:7084:-3.809e+00 ./.:7107:7086:-3.830e+00 @@ -8040,46 +8036,46 @@ MT 13644 . C . . . GT:DP:MIN_DP:TLOD ./.:7119:7005:-3.823e+00 ./.:7151 MT 13645 . T . . END=13646 GT:DP:MIN_DP:TLOD ./.:7155:7143:-3.398e+00 ./.:7151:7103:-3.830e+00 MT 13647 . C . . END=13649 GT:DP:MIN_DP:TLOD ./.:7199:7158:-3.776e+00 ./.:7151:7103:-3.830e+00 MT 13650 . C . . . GT:DP:MIN_DP:TLOD ./.:7252:7252:-3.433e+00 ./.:7164:7107:-2.772e+00 -MT 13651 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13669 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6276,91,3,0:7.281e-04,1.570e-04,1.567e-04:6370:base_quality;t_lod:28,7,12,0:337,361,345,0:60,60,60,0:26,36,0:0.010,0.010,0.014:1.010e-04,0.234,0.766:-2.598e+00,-3.327e+00,-3.328e+00 ./.:7164,0,0,0:0.00,0.00,0.00:7164:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.772e+00,-2.772e+00,-2.772e+00 +MT 13651 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13669 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6276,91,3,0:7.281e-04,1.570e-04,1.567e-04:6370:base_quality;t_lod:28,7,12,0:337,361,345,0:60,60,60,0:26,36,0:-2.598e+00,-3.327e+00,-3.328e+00 ./.:7164,0,0,0:0.00,0.00,0.00:7164:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.772e+00,-2.772e+00,-2.772e+00 MT 13652 . C . . END=13655 GT:DP:MIN_DP:TLOD ./.:6467:6452:-3.810e+00 ./.:7156:7076:-3.844e+00 MT 13656 . T . . . GT:DP:MIN_DP:TLOD ./.:6467:6452:-3.810e+00 ./.:7113:7113:-3.486e+00 MT 13657 . A . . END=13659 GT:DP:MIN_DP:TLOD ./.:6467:6452:-3.810e+00 ./.:7090:7068:-3.835e+00 MT 13660 . A . . . GT:DP:MIN_DP:TLOD ./.:6467:6452:-3.810e+00 ./.:7114:7114:-3.407e+00 -MT 13661 . A C, . base_quality;t_lod CONTQ=93.00;DP=13677 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6367,29,0:1.708e-04,1.551e-04:6396:base_quality;t_lod:28,7,0:337,342,0:60,60,0:35,0:0.010,0.010,4.534e-03:9.682e-05,0.015,0.984:-3.468e+00,-3.508e+00 ./.:7082,0,0:0.00,0.00:7082:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.738e+00,-3.738e+00 +MT 13661 . A C, . base_quality;t_lod CONTQ=93.00;DP=13677 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6367,29,0:1.708e-04,1.551e-04:6396:base_quality;t_lod:28,7,0:337,342,0:60,60,0:35,0:-3.468e+00,-3.508e+00 ./.:7082,0,0:0.00,0.00:7082:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.738e+00,-3.738e+00 MT 13662 . C . . . GT:DP:MIN_DP:TLOD ./.:6456:6451:-3.810e+00 ./.:7082:7074:-3.738e+00 MT 13663 . A . . . GT:DP:MIN_DP:TLOD ./.:6456:6451:-3.810e+00 ./.:7096:7096:-3.256e+00 MT 13664 . T . . END=13665 GT:DP:MIN_DP:TLOD ./.:6456:6451:-3.810e+00 ./.:7089:7085:-3.692e+00 -MT 13666 . A C, . base_quality;t_lod CONTQ=93.00;DP=13686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6396,26,0:1.660e-04,1.547e-04:6422:base_quality;t_lod:29,9,0:336,387,0:60,60,0:28,0:0.010,0.010,4.049e-03:2.330e-04,5.423e-04,0.999:-3.480e+00,-3.510e+00 ./.:7089,0,0:0.00,0.00:7089:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.692e+00,-3.692e+00 -MT 13667 . A G, . base_quality;t_lod CONTQ=93.00;DP=13681 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6391,12,0:1.560e-04,1.547e-04:6403:base_quality;t_lod:28,6,0:336,332,0:60,60,0:37,0:0.010,0.010,1.874e-03:7.166e-05,4.075e-03,0.996:-3.506e+00,-3.510e+00 ./.:7076,0,0:0.00,0.00:7076:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.394e+00,-3.394e+00 +MT 13666 . A C, . base_quality;t_lod CONTQ=93.00;DP=13686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6396,26,0:1.660e-04,1.547e-04:6422:base_quality;t_lod:29,9,0:336,387,0:60,60,0:28,0:-3.480e+00,-3.510e+00 ./.:7089,0,0:0.00,0.00:7089:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.692e+00,-3.692e+00 +MT 13667 . A G, . base_quality;t_lod CONTQ=93.00;DP=13681 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6391,12,0:1.560e-04,1.547e-04:6403:base_quality;t_lod:28,6,0:336,332,0:60,60,0:37,0:-3.506e+00,-3.510e+00 ./.:7076,0,0:0.00,0.00:7076:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.394e+00,-3.394e+00 MT 13668 . C . . END=13669 GT:DP:MIN_DP:TLOD ./.:6454:6414:-3.743e+00 ./.:7006:6956:-3.821e+00 MT 13670 . A . . . GT:DP:MIN_DP:TLOD ./.:6454:6414:-3.743e+00 ./.:7085:7085:-3.171e+00 -MT 13671 . A C, . base_quality;t_lod CONTQ=93.00;DP=13667 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6408,23,0:1.801e-04,1.543e-04:6431:base_quality;t_lod:28,7,0:336,328,0:60,60,0:45,0:0.010,0.010,3.576e-03:9.504e-05,6.002e-03,0.994:-3.443e+00,-3.511e+00 ./.:7061,0,0:0.00,0.00:7061:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.780e+00,-3.780e+00 +MT 13671 . A C, . base_quality;t_lod CONTQ=93.00;DP=13667 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6408,23,0:1.801e-04,1.543e-04:6431:base_quality;t_lod:28,7,0:336,328,0:60,60,0:45,0:-3.443e+00,-3.511e+00 ./.:7061,0,0:0.00,0.00:7061:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.780e+00,-3.780e+00 MT 13672 . A . . END=13673 GT:DP:MIN_DP:TLOD ./.:6471:6469:-3.773e+00 ./.:7061:7057:-3.780e+00 -MT 13674 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13633 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6411,9,16,0:1.638e-04,2.235e-04,1.543e-04:6436:base_quality;t_lod:29,11,8,0:336,406,401,0:60,60,60,0:18,23,0:0.010,0.010,2.489e-03:4.512e-04,1.809e-04,0.999:-3.309e+00,-3.170e+00,-3.334e+00 ./.:7012,0,0,0:0.00,0.00,0.00:7012:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.273e+00,-2.273e+00,-2.273e+00 -MT 13675 . A C, . base_quality;t_lod CONTQ=93.00;DP=13697 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6440,12,0:1.613e-04,1.537e-04:6452:base_quality;t_lod:29,9,0:337,362,0:60,60,0:15,0:0.010,0.010,1.860e-03:1.069e-04,6.126e-04,0.999:-3.492e+00,-3.512e+00 ./.:7066,0,0:0.00,0.00:7066:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.643e+00,-3.643e+00 +MT 13674 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13633 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6411,9,16,0:1.638e-04,2.235e-04,1.543e-04:6436:base_quality;t_lod:29,11,8,0:336,406,401,0:60,60,60,0:18,23,0:-3.309e+00,-3.170e+00,-3.334e+00 ./.:7012,0,0,0:0.00,0.00,0.00:7012:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.273e+00,-2.273e+00,-2.273e+00 +MT 13675 . A C, . base_quality;t_lod CONTQ=93.00;DP=13697 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6440,12,0:1.613e-04,1.537e-04:6452:base_quality;t_lod:29,9,0:337,362,0:60,60,0:15,0:-3.492e+00,-3.512e+00 ./.:7066,0,0:0.00,0.00:7066:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.643e+00,-3.643e+00 MT 13676 . A . . . GT:DP:MIN_DP:TLOD ./.:6462:6462:-3.335e+00 ./.:6970:6970:-3.140e+00 MT 13677 . C . . END=13679 GT:DP:MIN_DP:TLOD ./.:6530:6513:-3.807e+00 ./.:7139:7053:-3.705e+00 -MT 13680 . C T, . PASS CONTQ=93.00;DP=13700 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:27,6444,0:0.999,1.535e-04:6471:8,29,0:325,336,0:60,60,0:37,0:0.990,0.990,0.996:0.017,0.035,0.948:20735.68,-3.513e+00 ./.:7103,0,0:0.00,0.00:7103:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.05,1.05 -MT 13681 . A C, . base_quality;t_lod CONTQ=93.00;DP=13705 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6387,73,0:1.699e-04,1.545e-04:6460:base_quality;t_lod:28,7,0:336,361,0:60,60,0:20,0:0.010,0.010,0.011:1.385e-04,0.030,0.970:-3.471e+00,-3.510e+00 ./.:7103,0,0:0.00,0.00:7103:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.05,1.05 +MT 13680 . C T, . PASS CONTQ=93.00;DP=13700 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:27,6444,0:0.999,1.535e-04:6471:8,29,0:325,336,0:60,60,0:37,0:20735.68,-3.513e+00 ./.:7103,0,0:0.00,0.00:7103:.,.,.:.,.,.:.,.,.:.,.:1.05,1.05 +MT 13681 . A C, . base_quality;t_lod CONTQ=93.00;DP=13705 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6387,73,0:1.699e-04,1.545e-04:6460:base_quality;t_lod:28,7,0:336,361,0:60,60,0:20,0:-3.471e+00,-3.510e+00 ./.:7103,0,0:0.00,0.00:7103:PASS:.,.,.:.,.,.:.,.,.:.,.:1.05,1.05 MT 13682 . C . . END=13685 GT:DP:MIN_DP:TLOD ./.:6496:6465:-3.813e+00 ./.:7096:7030:-3.827e+00 MT 13686 . A . . . GT:DP:MIN_DP:TLOD ./.:6496:6465:-3.813e+00 ./.:7072:7072:-3.320e+00 MT 13687 . C . . END=13688 GT:DP:MIN_DP:TLOD ./.:6496:6465:-3.813e+00 ./.:7061:7042:-3.740e+00 -MT 13689 . A G, . base_quality;t_lod CONTQ=93.00;DP=13663 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6396,12,0:1.658e-04,1.548e-04:6408:base_quality;t_lod:28,10,0:335,364,0:60,60,0:34,0:0.010,0.010,1.873e-03:1.306e-04,3.850e-04,0.999:-3.480e+00,-3.509e+00 ./.:7064,0,0:0.00,0.00:7064:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.299e+00,-3.299e+00 +MT 13689 . A G, . base_quality;t_lod CONTQ=93.00;DP=13663 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6396,12,0:1.658e-04,1.548e-04:6408:base_quality;t_lod:28,10,0:335,364,0:60,60,0:34,0:-3.480e+00,-3.509e+00 ./.:7064,0,0:0.00,0.00:7064:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.299e+00,-3.299e+00 MT 13690 . A . . . GT:DP:MIN_DP:TLOD ./.:6443:6443:-3.701e+00 ./.:7030:7030:-3.766e+00 -MT 13691 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13503 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6289,86,9,0:2.086e-04,1.592e-04,1.567e-04:6384:base_quality;t_lod:28,5,12,0:334,352,379,0:60,60,60,0:28,63,0:0.010,0.010,0.013:8.617e-12,1.000,1.250e-07:-3.213e+00,-3.321e+00,-3.328e+00 ./.:6926,0,0,0:0.00,0.00,0.00:6926:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.363e+00,-2.363e+00,-2.363e+00 +MT 13691 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13503 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6289,86,9,0:2.086e-04,1.592e-04,1.567e-04:6384:base_quality;t_lod:28,5,12,0:334,352,379,0:60,60,60,0:28,63,0:-3.213e+00,-3.321e+00,-3.328e+00 ./.:6926,0,0,0:0.00,0.00,0.00:6926:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.363e+00,-2.363e+00,-2.363e+00 MT 13692 . C . . END=13695 GT:DP:MIN_DP:TLOD ./.:6464:6380:-3.812e+00 ./.:7162:7081:-3.819e+00 MT 13696 . A . . . GT:DP:MIN_DP:TLOD ./.:6464:6380:-3.812e+00 ./.:6988:6988:-3.484e+00 -MT 13697 . T C, . base_quality;t_lod CONTQ=93.00;DP=13297 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6354,16,0:1.576e-04,1.558e-04:6370:base_quality;t_lod:28,5,0:334,404,0:60,60,0:19,0:0.010,0.010,2.512e-03:2.242e-04,3.393e-04,0.999:-3.501e+00,-3.506e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.834e+00,-3.834e+00 +MT 13697 . T C, . base_quality;t_lod CONTQ=93.00;DP=13297 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6354,16,0:1.576e-04,1.558e-04:6370:base_quality;t_lod:28,5,0:334,404,0:60,60,0:19,0:-3.501e+00,-3.506e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.834e+00,-3.834e+00 MT 13698 . T . . . GT:DP:MIN_DP:TLOD ./.:6379:6379:-3.685e+00 ./.:7011:6755:-3.834e+00 -MT 13699 . A C, . base_quality;t_lod CONTQ=93.00;DP=13284 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6445,3,0:1.547e-04,1.544e-04:6448:base_quality;t_lod:29,9,0:334,354,0:60,60,0:19,0:0.010,0.00,4.653e-04:4.602e-05,9.387e-04,0.999:-3.510e+00,-3.510e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.834e+00,-3.834e+00 +MT 13699 . A C, . base_quality;t_lod CONTQ=93.00;DP=13284 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6445,3,0:1.547e-04,1.544e-04:6448:base_quality;t_lod:29,9,0:334,354,0:60,60,0:19,0:-3.510e+00,-3.510e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.834e+00,-3.834e+00 MT 13700 . A . . END=13703 GT:DP:MIN_DP:TLOD ./.:6334:6233:-3.802e+00 ./.:7011:6755:-3.834e+00 -MT 13704 . C A, . base_quality;t_lod CONTQ=93.00;DP=13265 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6333,6,0:1.714e-04,1.563e-04:6339:base_quality;t_lod:28,13,0:334,270,0:60,60,0:54,0:0.010,0.010,9.465e-04:1.407e-04,1.960e-04,1.000:-3.466e+00,-3.505e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.834e+00,-3.834e+00 +MT 13704 . C A, . base_quality;t_lod CONTQ=93.00;DP=13265 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6333,6,0:1.714e-04,1.563e-04:6339:base_quality;t_lod:28,13,0:334,270,0:60,60,0:54,0:-3.466e+00,-3.505e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.834e+00,-3.834e+00 MT 13705 . C . . END=13707 GT:DP:MIN_DP:TLOD ./.:6334:6293:-3.796e+00 ./.:7011:6755:-3.834e+00 -MT 13708 . G A, . base_quality;t_lod CONTQ=93.00;DP=13249 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6300,5,0:2.435e-04,1.573e-04:6305:base_quality;t_lod:28,13,0:334,393,0:60,60,0:34,0:0.00,0.010,7.930e-04:2.002e-03,5.404e-05,0.998:-3.298e+00,-3.502e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.834e+00,-3.834e+00 +MT 13708 . G A, . base_quality;t_lod CONTQ=93.00;DP=13249 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6300,5,0:2.435e-04,1.573e-04:6305:base_quality;t_lod:28,13,0:334,393,0:60,60,0:34,0:-3.298e+00,-3.502e+00 ./.:7011,0,0:0.00,0.00:7011:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.834e+00,-3.834e+00 MT 13709 . C . . END=13710 GT:DP:MIN_DP:TLOD ./.:6324:6296:-3.798e+00 ./.:7011:6755:-3.834e+00 MT 13711 . G . . . GT:DP:MIN_DP:TLOD ./.:6324:6296:-3.798e+00 ./.:6937:6937:-3.238e+00 -MT 13712 . C A, . base_quality;t_lod CONTQ=93.00;DP=13508 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6306,7,0:1.740e-04,1.570e-04:6313:base_quality;t_lod:28,12,0:334,461,0:60,60,0:44,0:0.010,0.010,1.109e-03:4.114e-04,1.059e-04,0.999:-3.459e+00,-3.503e+00 ./.:7028,0,0:0.00,0.00:7028:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.782e+00,-3.782e+00 -MT 13713 . C A, . base_quality;t_lod CONTQ=93.00;DP=13484 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6308,6,0:1.994e-04,1.571e-04:6314:base_quality;t_lod:25,14,0:334,291,0:60,60,0:48,0:0.010,0.010,9.503e-04:1.375e-04,2.041e-04,1.000:-3.393e+00,-3.503e+00 ./.:7002,0,0:0.00,0.00:7002:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.483e+00,-3.483e+00 +MT 13712 . C A, . base_quality;t_lod CONTQ=93.00;DP=13508 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6306,7,0:1.740e-04,1.570e-04:6313:base_quality;t_lod:28,12,0:334,461,0:60,60,0:44,0:-3.459e+00,-3.503e+00 ./.:7028,0,0:0.00,0.00:7028:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.782e+00,-3.782e+00 +MT 13713 . C A, . base_quality;t_lod CONTQ=93.00;DP=13484 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6308,6,0:1.994e-04,1.571e-04:6314:base_quality;t_lod:25,14,0:334,291,0:60,60,0:48,0:-3.393e+00,-3.503e+00 ./.:7002,0,0:0.00,0.00:7002:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.483e+00,-3.483e+00 MT 13714 . G . . END=13720 GT:DP:MIN_DP:TLOD ./.:7050:6915:-3.841e+00 ./.:6998:6789:-3.812e+00 MT 13721 . T . . . GT:DP:MIN_DP:TLOD ./.:6994:6994:-3.439e+00 ./.:6923:6923:-3.222e+00 MT 13722 . A . . END=13723 GT:DP:MIN_DP:TLOD ./.:6987:6970:-3.815e+00 ./.:6920:6730:-3.828e+00 @@ -8087,8 +8083,8 @@ MT 13724 . T . . . GT:DP:MIN_DP:TLOD ./.:6991:6991:-3.209e+00 ./.:6920 MT 13725 . C . . END=13727 GT:DP:MIN_DP:TLOD ./.:6966:6842:-3.790e+00 ./.:6920:6730:-3.828e+00 MT 13728 . A . . . GT:DP:MIN_DP:TLOD ./.:6978:6978:-3.223e+00 ./.:6904:6904:-3.420e+00 MT 13729 . G . . . GT:DP:MIN_DP:TLOD ./.:6926:6926:-3.660e+00 ./.:6872:6872:-3.775e+00 -MT 13730 . G A, . base_quality;t_lod CONTQ=93.00;DP=11434 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6820,0,0:0.00,0.00:6820:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.433e+00,-3.433e+00 ././.:4474,4,0:2.931e-04,2.212e-04:4478:base_quality;t_lod:28,7,0:329,364,0:60,60,0:9,0:0.010,0.010,8.933e-04:6.344e-04,9.660e-05,0.999:-3.216e+00,-3.355e+00 -MT 13731 . A C, . base_quality;t_lod CONTQ=93.00;DP=11447 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6831,0,0:0.00,0.00:6831:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.753e+00,-3.753e+00 ././.:4460,17,0:2.312e-04,2.215e-04:4477:base_quality;t_lod:28,7,0:329,319,0:60,60,0:19,0:0.010,0.010,3.797e-03:3.876e-03,1.407e-04,0.996:-3.335e+00,-3.354e+00 +MT 13730 . G A, . base_quality;t_lod CONTQ=93.00;DP=11434 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6820,0,0:0.00,0.00:6820:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.433e+00,-3.433e+00 ././.:4474,4,0:2.931e-04,2.212e-04:4478:base_quality;t_lod:28,7,0:329,364,0:60,60,0:9,0:-3.216e+00,-3.355e+00 +MT 13731 . A C, . base_quality;t_lod CONTQ=93.00;DP=11447 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6831,0,0:0.00,0.00:6831:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.753e+00,-3.753e+00 ././.:4460,17,0:2.312e-04,2.215e-04:4477:base_quality;t_lod:28,7,0:329,319,0:60,60,0:19,0:-3.335e+00,-3.354e+00 MT 13732 . T . . END=13733 GT:DP:MIN_DP:TLOD ./.:6854:6841:-3.494e+00 ./.:4534:4506:-3.656e+00 MT 13734 . T . . . GT:DP:MIN_DP:TLOD ./.:6875:6875:-2.579e+00 ./.:4534:4506:-3.656e+00 MT 13735 . C . . END=13736 GT:DP:MIN_DP:TLOD ./.:6897:6894:-3.715e+00 ./.:4534:4506:-3.656e+00 @@ -8096,52 +8092,52 @@ MT 13737 . C . . END=13738 GT:DP:MIN_DP:TLOD ./.:6910:6902:-3.494e+00 MT 13739 . T . . . GT:DP:MIN_DP:TLOD ./.:6887:6887:-3.787e+00 ./.:4534:4506:-3.656e+00 MT 13740 . T . . . GT:DP:MIN_DP:TLOD ./.:6904:6904:-3.097e+00 ./.:4534:4506:-3.656e+00 MT 13741 . A . . END=13742 GT:DP:MIN_DP:TLOD ./.:6908:6860:-3.773e+00 ./.:4534:4506:-3.656e+00 -MT 13743 . T C, . base_quality;t_lod CONTQ=93.00;DP=11539 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6908,0,0:0.00,0.00:6908:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.773e+00,-3.773e+00 ././.:4515,13,0:3.830e-04,2.185e-04:4528:base_quality;t_lod:29,9,0:332,356,0:60,60,0:17,0:0.010,0.010,2.871e-03:8.377e-04,1.891e-04,0.999:-3.080e+00,-3.359e+00 +MT 13743 . T C, . base_quality;t_lod CONTQ=93.00;DP=11539 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6908,0,0:0.00,0.00:6908:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.773e+00,-3.773e+00 ././.:4515,13,0:3.830e-04,2.185e-04:4528:base_quality;t_lod:29,9,0:332,356,0:60,60,0:17,0:-3.080e+00,-3.359e+00 MT 13744 . A . . . GT:DP:MIN_DP:TLOD ./.:6908:6860:-3.773e+00 ./.:4559:4555:-3.648e+00 MT 13745 . A . . . GT:DP:MIN_DP:TLOD ./.:6878:6878:-3.420e+00 ./.:4559:4555:-3.648e+00 MT 13746 . C . . . GT:DP:MIN_DP:TLOD ./.:6841:6762:-3.821e+00 ./.:4559:4555:-3.648e+00 -MT 13747 . A C, . base_quality;t_lod CONTQ=93.00;DP=11481 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6841,0,0:0.00,0.00:6841:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.821e+00,-3.821e+00 ././.:4542,25,0:2.438e-04,2.173e-04:4567:base_quality;t_lod:28,8,0:332,378,0:60,60,0:22,0:0.010,0.010,5.474e-03:1.805e-04,5.398e-03,0.994:-3.314e+00,-3.362e+00 +MT 13747 . A C, . base_quality;t_lod CONTQ=93.00;DP=11481 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6841,0,0:0.00,0.00:6841:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.821e+00,-3.821e+00 ././.:4542,25,0:2.438e-04,2.173e-04:4567:base_quality;t_lod:28,8,0:332,378,0:60,60,0:22,0:-3.314e+00,-3.362e+00 MT 13748 . A . . END=13749 GT:DP:MIN_DP:TLOD ./.:6841:6762:-3.821e+00 ./.:4537:4534:-3.663e+00 -MT 13750 . A C, . base_quality;t_lod CONTQ=93.00;DP=11454 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6733,0,0:0.00,0.00:6733:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.599e+00,-2.599e+00 ././.:4511,60,0:4.774e-04,2.188e-04:4571:base_quality;t_lod:28,8,0:331,341,0:60,60,0:25,0:0.010,0.010,0.013:1.461e-04,0.204,0.796:-3.028e+00,-3.359e+00 -MT 13751 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=11316 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6601,0,0,0:0.00,0.00,0.00:6601:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.320e+00,-3.320e+00,-3.320e+00 ./././.:4532,2,36,0:2.176e-04,2.276e-04,2.173e-04:4570:base_quality;t_lod:28,12,6,0:331,688,319,0:60,60,60,0:33,12,0:0.010,0.010,7.881e-03:6.897e-03,1.836e-04,0.993:-3.185e+00,-3.166e+00,-3.186e+00 -MT 13752 . T C, . base_quality;t_lod CONTQ=93.00;DP=11311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6601,0,0:0.00,0.00:6601:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.320e+00,-3.320e+00 ././.:4533,38,0:2.676e-04,2.186e-04:4571:base_quality;t_lod:28,7,0:332,347,0:60,60,0:14,0:0.010,0.010,8.313e-03:2.487e-04,3.389e-03,0.996:-3.271e+00,-3.359e+00 -MT 13753 . T A, . base_quality;t_lod CONTQ=93.00;DP=11207 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6488,0,0:0.00,0.00:6488:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.023e+00,-1.023e+00 ././.:4499,6,0:2.216e-04,2.202e-04:4505:base_quality;t_lod:27,13,0:332,326,0:60,60,0:47,0:0.010,0.00,1.332e-03:1.141e-04,1.375e-03,0.999:-3.354e+00,-3.356e+00 -MT 13754 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=11431 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6810,0,0:0.00,0.00:6810:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.812e+00,-3.812e+00 ././.:4576,0,0:2.158e-04,2.158e-04:4576:base_quality;contamination;mapping_quality;t_lod:28,0,0:332,0,0:60,0,0:0,0:0.00,0.00,0.00:1.137e-04,4.933e-05,1.000:-3.365e+00,-3.365e+00 +MT 13750 . A C, . base_quality;t_lod CONTQ=93.00;DP=11454 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6733,0,0:0.00,0.00:6733:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.599e+00,-2.599e+00 ././.:4511,60,0:4.774e-04,2.188e-04:4571:base_quality;t_lod:28,8,0:331,341,0:60,60,0:25,0:-3.028e+00,-3.359e+00 +MT 13751 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=11316 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6601,0,0,0:0.00,0.00,0.00:6601:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.320e+00,-3.320e+00,-3.320e+00 ./././.:4532,2,36,0:2.176e-04,2.276e-04,2.173e-04:4570:base_quality;t_lod:28,12,6,0:331,688,319,0:60,60,60,0:33,12,0:-3.185e+00,-3.166e+00,-3.186e+00 +MT 13752 . T C, . base_quality;t_lod CONTQ=93.00;DP=11311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6601,0,0:0.00,0.00:6601:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.320e+00,-3.320e+00 ././.:4533,38,0:2.676e-04,2.186e-04:4571:base_quality;t_lod:28,7,0:332,347,0:60,60,0:14,0:-3.271e+00,-3.359e+00 +MT 13753 . T A, . base_quality;t_lod CONTQ=93.00;DP=11207 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6488,0,0:0.00,0.00:6488:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.023e+00,-1.023e+00 ././.:4499,6,0:2.216e-04,2.202e-04:4505:base_quality;t_lod:27,13,0:332,326,0:60,60,0:47,0:-3.354e+00,-3.356e+00 +MT 13754 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=11431 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6810,0,0:0.00,0.00:6810:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.812e+00,-3.812e+00 ././.:4576,0,0:2.158e-04,2.158e-04:4576:base_quality;contamination;mapping_quality;t_lod:28,0,0:332,0,0:60,0,0:0,0:-3.365e+00,-3.365e+00 MT 13755 . C . . END=13758 GT:DP:MIN_DP:TLOD ./.:6810:6708:-3.812e+00 ./.:4613:4607:-3.665e+00 -MT 13759 . G C, . base_quality;t_lod CONTQ=93.00;DP=10841 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6081,0,0:0.00,0.00:6081:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-6.358e-01,-6.358e-01 ././.:4529,48,0:3.429e-04,2.174e-04:4577:base_quality;t_lod:27,4,0:332,335,0:60,60,0:9,0:0.010,0.010,0.010:1.000,3.696e-10,4.760e-06:-3.150e+00,-3.362e+00 +MT 13759 . G C, . base_quality;t_lod CONTQ=93.00;DP=10841 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6081,0,0:0.00,0.00:6081:PASS:.,.,.:.,.,.:.,.,.:.,.:-6.358e-01,-6.358e-01 ././.:4529,48,0:3.429e-04,2.174e-04:4577:base_quality;t_lod:27,4,0:332,335,0:60,60,0:9,0:-3.150e+00,-3.362e+00 MT 13760 . C . . . GT:DP:MIN_DP:TLOD ./.:6494:6494:-3.803e+00 ./.:4566:4566:-3.663e+00 -MT 13761 . A C, . base_quality;t_lod CONTQ=93.00;DP=10754 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6135,0,0:0.00,0.00:6135:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.17,1.17 ././.:4498,103,0:9.868e-04,2.185e-04:4601:base_quality;t_lod:28,5,0:331,349,0:60,60,0:15,0:0.010,0.020,0.022:1.00,0.00,1.107e-17:-2.532e+00,-3.360e+00 -MT 13762 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=10767 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6135,0,0,0:0.00,0.00,0.00:6135:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:1.17,1.17,1.17 ./././.:4464,7,96,0:2.203e-04,2.533e-04,2.187e-04:4567:base_quality;t_lod:27,2,4,0:332,439,339,0:60,60,60,0:9,11,0:0.010,0.020,0.021:0.997,4.338e-07,3.156e-03:-3.180e+00,-3.124e+00,-3.183e+00 -MT 13763 . C A, . base_quality;t_lod CONTQ=93.00;DP=11071 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6282,0,0:0.00,0.00:6282:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.684e+00,-3.684e+00 ././.:4625,6,0:2.149e-04,2.136e-04:4631:base_quality;t_lod:28,11,0:332,428,0:60,60,0:24,0:0.010,0.010,1.296e-03:6.183e-04,1.205e-04,0.999:-3.367e+00,-3.369e+00 -MT 13764 . C A, . base_quality;t_lod CONTQ=93.00;DP=11223 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6426,0,0:0.00,0.00:6426:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.888e+00,-2.888e+00 ././.:4642,6,0:3.436e-04,2.128e-04:4648:base_quality;t_lod:28,14,0:332,402,0:60,60,0:6,0:0.010,0.010,1.291e-03:9.490e-03,6.291e-05,0.990:-3.142e+00,-3.371e+00 +MT 13761 . A C, . base_quality;t_lod CONTQ=93.00;DP=10754 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6135,0,0:0.00,0.00:6135:PASS:.,.,.:.,.,.:.,.,.:.,.:1.17,1.17 ././.:4498,103,0:9.868e-04,2.185e-04:4601:base_quality;t_lod:28,5,0:331,349,0:60,60,0:15,0:-2.532e+00,-3.360e+00 +MT 13762 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=10767 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6135,0,0,0:0.00,0.00,0.00:6135:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:1.17,1.17,1.17 ./././.:4464,7,96,0:2.203e-04,2.533e-04,2.187e-04:4567:base_quality;t_lod:27,2,4,0:332,439,339,0:60,60,60,0:9,11,0:-3.180e+00,-3.124e+00,-3.183e+00 +MT 13763 . C A, . base_quality;t_lod CONTQ=93.00;DP=11071 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6282,0,0:0.00,0.00:6282:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.684e+00,-3.684e+00 ././.:4625,6,0:2.149e-04,2.136e-04:4631:base_quality;t_lod:28,11,0:332,428,0:60,60,0:24,0:-3.367e+00,-3.369e+00 +MT 13764 . C A, . base_quality;t_lod CONTQ=93.00;DP=11223 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6426,0,0:0.00,0.00:6426:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.888e+00,-2.888e+00 ././.:4642,6,0:3.436e-04,2.128e-04:4648:base_quality;t_lod:28,14,0:332,402,0:60,60,0:6,0:-3.142e+00,-3.371e+00 MT 13765 . C . . END=13767 GT:DP:MIN_DP:TLOD ./.:6447:6407:-3.756e+00 ./.:4624:4615:-3.666e+00 -MT 13768 . T C, . base_quality;t_lod CONTQ=93.00;DP=10827 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6048,0,0:0.00,0.00:6048:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.40,1.40 ././.:4530,55,0:3.158e-04,2.168e-04:4585:base_quality;t_lod:28,5,0:331,350,0:60,60,0:10,0:0.010,0.010,0.012:1.000,2.697e-18,4.399e-14:-3.215e+00,-3.363e+00 +MT 13768 . T C, . base_quality;t_lod CONTQ=93.00;DP=10827 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6048,0,0:0.00,0.00:6048:PASS:.,.,.:.,.,.:.,.,.:.,.:1.40,1.40 ././.:4530,55,0:3.158e-04,2.168e-04:4585:base_quality;t_lod:28,5,0:331,350,0:60,60,0:10,0:-3.215e+00,-3.363e+00 MT 13769 . T . . . GT:DP:MIN_DP:TLOD ./.:6025:6025:-2.089e-01 ./.:4513:4513:-3.418e+00 MT 13770 . C . . END=13771 GT:DP:MIN_DP:TLOD ./.:6183:6168:-3.750e+00 ./.:4566:4555:-3.597e+00 -MT 13772 . A C, . base_quality;t_lod CONTQ=93.00;DP=10804 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6067,0,0:0.00,0.00:6067:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:2.20,2.20 ././.:4547,43,0:3.145e-04,2.162e-04:4590:base_quality;t_lod:28,7,0:331,362,0:60,60,0:18,0:0.010,0.010,9.368e-03:1.000,1.472e-12,2.228e-08:-3.211e+00,-3.364e+00 +MT 13772 . A C, . base_quality;t_lod CONTQ=93.00;DP=10804 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6067,0,0:0.00,0.00:6067:PASS:.,.,.:.,.,.:.,.,.:.,.:2.20,2.20 ././.:4547,43,0:3.145e-04,2.162e-04:4590:base_quality;t_lod:28,7,0:331,362,0:60,60,0:18,0:-3.211e+00,-3.364e+00 MT 13773 . A . . . GT:DP:MIN_DP:TLOD ./.:6067:6039:2.20 ./.:4548:4548:-2.939e+00 MT 13774 . A . . . GT:DP:MIN_DP:TLOD ./.:6037:6037:-3.349e+00 ./.:4551:4543:-3.659e+00 MT 13775 . C . . . GT:DP:MIN_DP:TLOD ./.:5987:5987:-3.591e+00 ./.:4551:4543:-3.659e+00 -MT 13776 . A C, . base_quality;t_lod CONTQ=93.00;DP=10770 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6046,0,0:0.00,0.00:6046:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.163e+00,-2.163e+00 ././.:4615,31,0:2.360e-04,2.143e-04:4646:base_quality;t_lod:28,8,0:331,332,0:60,60,0:33,0:0.010,0.010,6.672e-03:6.873e-04,3.857e-04,0.999:-3.328e+00,-3.368e+00 +MT 13776 . A C, . base_quality;t_lod CONTQ=93.00;DP=10770 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6046,0,0:0.00,0.00:6046:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.163e+00,-2.163e+00 ././.:4615,31,0:2.360e-04,2.143e-04:4646:base_quality;t_lod:28,8,0:331,332,0:60,60,0:33,0:-3.328e+00,-3.368e+00 MT 13777 . A . . . GT:DP:MIN_DP:TLOD ./.:6046:5995:-2.163e+00 ./.:4559:4559:-3.474e+00 MT 13778 . C . . . GT:DP:MIN_DP:TLOD ./.:5955:5955:-3.704e+00 ./.:4550:4550:-3.511e+00 -MT 13779 . A C, . base_quality;t_lod CONTQ=93.00;DP=10815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6044,0,0:0.00,0.00:6044:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:5.07,5.07 ././.:4590,38,0:2.922e-04,2.154e-04:4628:base_quality;t_lod:28,7,0:331,334,0:60,60,0:19,0:0.010,0.010,8.211e-03:1.042e-03,3.249e-04,0.999:-3.236e+00,-3.366e+00 +MT 13779 . A C, . base_quality;t_lod CONTQ=93.00;DP=10815 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6044,0,0:0.00,0.00:6044:PASS:.,.,.:.,.,.:.,.,.:.,.:5.07,5.07 ././.:4590,38,0:2.922e-04,2.154e-04:4628:base_quality;t_lod:28,7,0:331,334,0:60,60,0:19,0:-3.236e+00,-3.366e+00 MT 13780 . A . . . GT:DP:MIN_DP:TLOD ./.:5976:5976:-6.268e-01 ./.:4550:4550:-3.468e+00 -MT 13781 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=10620 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5864,0,0,0:0.00,0.00,0.00:5864:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:4.01,4.01,4.01 ./././.:4530,14,44,0:2.316e-04,2.844e-04,2.174e-04:4588:base_quality;t_lod:27,13,5,0:330,383,356,0:60,60,60,0:22,30,0:0.010,0.010,9.620e-03:3.147e-03,2.488e-04,0.997:-3.159e+00,-3.068e+00,-3.186e+00 +MT 13781 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=10620 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5864,0,0,0:0.00,0.00,0.00:5864:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:4.01,4.01,4.01 ./././.:4530,14,44,0:2.316e-04,2.844e-04,2.174e-04:4588:base_quality;t_lod:27,13,5,0:330,383,356,0:60,60,60,0:22,30,0:-3.159e+00,-3.068e+00,-3.186e+00 MT 13782 . C . . . GT:DP:MIN_DP:TLOD ./.:6074:6074:-3.451e+00 ./.:4620:4620:-3.642e+00 MT 13783 . C . . . GT:DP:MIN_DP:TLOD ./.:6177:6136:-3.736e+00 ./.:4644:4644:-3.349e+00 MT 13784 . C . . END=13786 GT:DP:MIN_DP:TLOD ./.:6177:6136:-3.736e+00 ./.:4657:4656:-3.671e+00 -MT 13787 . T C, . base_quality;t_lod CONTQ=93.00;DP=10647 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5858,0,0:0.00,0.00:5858:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:6.27,6.27 ././.:4538,73,0:3.368e-04,2.164e-04:4611:base_quality;t_lod:28,5,0:330,344,0:60,60,0:50,0:0.010,0.020,0.016:1.00,0.00,0.00:-3.191e+00,-3.364e+00 +MT 13787 . T C, . base_quality;t_lod CONTQ=93.00;DP=10647 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5858,0,0:0.00,0.00:5858:PASS:.,.,.:.,.,.:.,.,.:.,.:6.27,6.27 ././.:4538,73,0:3.368e-04,2.164e-04:4611:base_quality;t_lod:28,5,0:330,344,0:60,60,0:50,0:-3.191e+00,-3.364e+00 MT 13788 . C . . . GT:DP:MIN_DP:TLOD ./.:5980:5980:-3.666e+00 ./.:4660:4653:-3.652e+00 MT 13789 . T . . . GT:DP:MIN_DP:TLOD ./.:5898:5898:-3.071e+00 ./.:4660:4653:-3.652e+00 -MT 13790 . A C, . base_quality;t_lod CONTQ=93.00;DP=10789 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5961,0,0:0.00,0.00:5961:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-9.064e-01,-9.064e-01 ././.:4638,48,0:2.620e-04,2.129e-04:4686:base_quality;t_lod:28,7,0:330,331,0:60,60,0:42,0:0.010,0.010,0.010:0.016,1.744e-04,0.984:-3.286e+00,-3.371e+00 +MT 13790 . A C, . base_quality;t_lod CONTQ=93.00;DP=10789 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5961,0,0:0.00,0.00:5961:PASS:.,.,.:.,.,.:.,.,.:.,.:-9.064e-01,-9.064e-01 ././.:4638,48,0:2.620e-04,2.129e-04:4686:base_quality;t_lod:28,7,0:330,331,0:60,60,0:42,0:-3.286e+00,-3.371e+00 MT 13791 . C . . . GT:DP:MIN_DP:TLOD ./.:5980:5980:-3.740e+00 ./.:4738:4688:-3.673e+00 MT 13792 . C . . . GT:DP:MIN_DP:TLOD ./.:6064:6064:-3.285e+00 ./.:4738:4688:-3.673e+00 MT 13793 . T . . . GT:DP:MIN_DP:TLOD ./.:5978:5978:-3.595e+00 ./.:4738:4688:-3.673e+00 MT 13794 . A . . . GT:DP:MIN_DP:TLOD ./.:5967:5967:-2.581e+00 ./.:4738:4688:-3.673e+00 MT 13795 . A . . . GT:DP:MIN_DP:TLOD ./.:5933:5933:-2.312e+00 ./.:4738:4688:-3.673e+00 -MT 13796 . A C, . base_quality;t_lod CONTQ=93.00;DP=10769 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5879,0,0:0.00,0.00:5879:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.04,1.04 ././.:4708,64,0:2.785e-04,2.100e-04:4772:base_quality;t_lod:28,7,0:329,331,0:60,60,0:42,0:0.010,0.010,0.013:4.120e-04,1.322e-03,0.998:-3.262e+00,-3.377e+00 -MT 13797 . A C, . base_quality;t_lod CONTQ=93.00;DP=10789 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:5879,0,0:0.00,0.00:5879:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.04,1.04 ././.:4713,87,0:7.408e-04,2.098e-04:4800:base_quality;t_lod:27,7,0:329,332,0:60,60,0:37,0:0.020,0.010,0.018:2.662e-05,0.825,0.175:-2.779e+00,-3.377e+00 +MT 13796 . A C, . base_quality;t_lod CONTQ=93.00;DP=10769 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5879,0,0:0.00,0.00:5879:PASS:.,.,.:.,.,.:.,.,.:.,.:1.04,1.04 ././.:4708,64,0:2.785e-04,2.100e-04:4772:base_quality;t_lod:28,7,0:329,331,0:60,60,0:42,0:-3.262e+00,-3.377e+00 +MT 13797 . A C, . base_quality;t_lod CONTQ=93.00;DP=10789 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:5879,0,0:0.00,0.00:5879:PASS:.,.,.:.,.,.:.,.,.:.,.:1.04,1.04 ././.:4713,87,0:7.408e-04,2.098e-04:4800:base_quality;t_lod:27,7,0:329,332,0:60,60,0:37,0:-2.779e+00,-3.377e+00 MT 13798 . C . . . GT:DP:MIN_DP:TLOD ./.:5958:5958:-3.738e+00 ./.:5910:5910:-3.634e+00 MT 13799 . T . . . GT:DP:MIN_DP:TLOD ./.:5990:5990:-3.073e+00 ./.:5915:5915:-2.766e+00 MT 13800 . C . . . GT:DP:MIN_DP:TLOD ./.:6021:6021:-3.610e+00 ./.:5999:5999:-3.724e+00 @@ -8275,72 +8271,72 @@ MT 13993 . C . . . GT:DP:MIN_DP:TLOD ./.:7085:7085:-3.385e+00 ./.:7153 MT 13994 . T . . . GT:DP:MIN_DP:TLOD ./.:7040:7040:-3.640e+00 ./.:7083:7083:-3.480e+00 MT 13995 . A . . END=13997 GT:DP:MIN_DP:TLOD ./.:7007:6961:-3.478e+00 ./.:7045:6993:-3.800e+00 MT 13998 . C . . END=14000 GT:DP:MIN_DP:TLOD ./.:7021:6999:-3.769e+00 ./.:7045:6993:-3.800e+00 -MT 14001 . A C, . base_quality;t_lod CONTQ=93.00;DP=13163 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6993,0,0:0.00,0.00:6993:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.083e+00,-3.083e+00 ././.:5998,29,0:1.882e-04,1.650e-04:6027:base_quality;t_lod:29,8,0:330,349,0:60,60,0:24,0:0.010,0.010,4.812e-03:4.041e-05,0.459,0.541:-3.426e+00,-3.482e+00 +MT 14001 . A C, . base_quality;t_lod CONTQ=93.00;DP=13163 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6993,0,0:0.00,0.00:6993:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.083e+00,-3.083e+00 ././.:5998,29,0:1.882e-04,1.650e-04:6027:base_quality;t_lod:29,8,0:330,349,0:60,60,0:24,0:-3.426e+00,-3.482e+00 MT 14002 . A . . . GT:DP:MIN_DP:TLOD ./.:6993:6969:-3.083e+00 ./.:6158:6158:-3.355e+00 MT 14003 . C . . . GT:DP:MIN_DP:TLOD ./.:7013:6990:-3.827e+00 ./.:6176:6176:-3.777e+00 -MT 14004 . C A, . base_quality;t_lod CONTQ=93.00;DP=13175 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7013,0,0:0.00,0.00:7013:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.827e+00,-3.827e+00 ././.:6026,3,0:2.137e-04,1.642e-04:6029:base_quality;t_lod:28,13,0:330,392,0:60,60,0:5,0:0.010,0.010,4.976e-04:9.130e-05,1.727e-04,1.000:-3.355e+00,-3.483e+00 +MT 14004 . C A, . base_quality;t_lod CONTQ=93.00;DP=13175 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7013,0,0:0.00,0.00:7013:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.827e+00,-3.827e+00 ././.:6026,3,0:2.137e-04,1.642e-04:6029:base_quality;t_lod:28,13,0:330,392,0:60,60,0:5,0:-3.355e+00,-3.483e+00 MT 14005 . T . . . GT:DP:MIN_DP:TLOD ./.:7013:6990:-3.827e+00 ./.:6170:6155:-3.785e+00 MT 14006 . G . . END=14007 GT:DP:MIN_DP:TLOD ./.:6959:6955:-3.292e+00 ./.:6170:6155:-3.785e+00 MT 14008 . C . . END=14009 GT:DP:MIN_DP:TLOD ./.:6979:6977:-3.823e+00 ./.:6170:6155:-3.785e+00 -MT 14010 . A C, . base_quality;t_lod CONTQ=93.00;DP=13136 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6979,0,0:0.00,0.00:6979:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.823e+00,-3.823e+00 ././.:5979,13,0:1.748e-04,1.653e-04:5992:base_quality;t_lod:29,10,0:329,338,0:60,60,0:24,0:0.010,0.010,2.170e-03:3.572e-03,8.423e-05,0.996:-3.457e+00,-3.481e+00 +MT 14010 . A C, . base_quality;t_lod CONTQ=93.00;DP=13136 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6979,0,0:0.00,0.00:6979:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.823e+00,-3.823e+00 ././.:5979,13,0:1.748e-04,1.653e-04:5992:base_quality;t_lod:29,10,0:329,338,0:60,60,0:24,0:-3.457e+00,-3.481e+00 MT 14011 . G . . . GT:DP:MIN_DP:TLOD ./.:6964:6964:-3.067e+00 ./.:6171:6151:-3.781e+00 MT 14012 . A . . END=14013 GT:DP:MIN_DP:TLOD ./.:7005:7004:-2.967e+00 ./.:6171:6151:-3.781e+00 MT 14014 . A . . END=14015 GT:DP:MIN_DP:TLOD ./.:6970:6951:-3.735e+00 ./.:6171:6151:-3.781e+00 -MT 14016 . G T, . base_quality;t_lod CONTQ=93.00;DP=13078 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6900,0,0:0.00,0.00:6900:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.232e+00,-3.232e+00 ././.:6007,7,0:1.677e-04,1.648e-04:6014:base_quality;t_lod:28,12,0:329,328,0:60,60,0:39,0:0.010,0.010,1.164e-03:2.778e-04,1.413e-04,1.000:-3.475e+00,-3.482e+00 +MT 14016 . G T, . base_quality;t_lod CONTQ=93.00;DP=13078 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6900,0,0:0.00,0.00:6900:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.232e+00,-3.232e+00 ././.:6007,7,0:1.677e-04,1.648e-04:6014:base_quality;t_lod:28,12,0:329,328,0:60,60,0:39,0:-3.475e+00,-3.482e+00 MT 14017 . C . . . GT:DP:MIN_DP:TLOD ./.:6929:6929:-3.579e+00 ./.:6152:6136:-3.776e+00 MT 14018 . T . . END=14019 GT:DP:MIN_DP:TLOD ./.:6928:6926:-3.389e+00 ./.:6152:6136:-3.776e+00 MT 14020 . T . . . GT:DP:MIN_DP:TLOD ./.:6905:6905:-3.524e+00 ./.:6152:6136:-3.776e+00 MT 14021 . T . . END=14022 GT:DP:MIN_DP:TLOD ./.:6940:6938:-3.499e+00 ./.:6152:6136:-3.776e+00 MT 14023 . C . . END=14025 GT:DP:MIN_DP:TLOD ./.:6965:6905:-3.743e+00 ./.:6152:6136:-3.776e+00 -MT 14026 . A C, . base_quality;t_lod CONTQ=93.00;DP=13113 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6965,0,0:0.00,0.00:6965:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.743e+00,-3.743e+00 ././.:6035,15,0:1.847e-04,1.640e-04:6050:base_quality;t_lod:29,8,0:328,417,0:60,60,0:18,0:0.010,0.010,2.479e-03:2.314e-04,3.324e-04,0.999:-3.434e+00,-3.484e+00 -MT 14027 . A C, . base_quality;t_lod CONTQ=93.00;DP=13175 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.965e+00,-2.965e+00 ././.:6011,28,0:2.135e-04,1.644e-04:6039:base_quality;t_lod:28,8,0:328,352,0:60,60,0:20,0:0.010,0.010,4.637e-03:8.032e-05,0.068,0.932:-3.374e+00,-3.483e+00 +MT 14026 . A C, . base_quality;t_lod CONTQ=93.00;DP=13113 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6965,0,0:0.00,0.00:6965:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.743e+00,-3.743e+00 ././.:6035,15,0:1.847e-04,1.640e-04:6050:base_quality;t_lod:29,8,0:328,417,0:60,60,0:18,0:-3.434e+00,-3.484e+00 +MT 14027 . A C, . base_quality;t_lod CONTQ=93.00;DP=13175 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.965e+00,-2.965e+00 ././.:6011,28,0:2.135e-04,1.644e-04:6039:base_quality;t_lod:28,8,0:328,352,0:60,60,0:20,0:-3.374e+00,-3.483e+00 MT 14028 . A . . . GT:DP:MIN_DP:TLOD ./.:6963:6961:-2.965e+00 ./.:6181:6177:-3.768e+00 MT 14029 . A . . . GT:DP:MIN_DP:TLOD ./.:6936:6936:-3.414e+00 ./.:6181:6177:-3.768e+00 MT 14030 . C . . . GT:DP:MIN_DP:TLOD ./.:6935:6935:-3.812e+00 ./.:6181:6177:-3.768e+00 MT 14031 . A . . . GT:DP:MIN_DP:TLOD ./.:6956:6956:-2.848e+00 ./.:6181:6177:-3.768e+00 -MT 14032 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13096 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6883,0,0,0:0.00,0.00,0.00:6883:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.437e+00,-3.437e+00,-3.437e+00 ./././.:6029,39,1,0:2.242e-04,1.640e-04,1.639e-04:6069:base_quality;t_lod:28,7,12,0:328,365,314,0:60,60,60,0:20,29,0:0.010,0.010,6.427e-03:2.529e-04,9.430e-04,0.999:-3.176e+00,-3.308e+00,-3.308e+00 +MT 14032 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13096 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6883,0,0,0:0.00,0.00,0.00:6883:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.437e+00,-3.437e+00,-3.437e+00 ./././.:6029,39,1,0:2.242e-04,1.640e-04,1.639e-04:6069:base_quality;t_lod:28,7,12,0:328,365,314,0:60,60,60,0:20,29,0:-3.176e+00,-3.308e+00,-3.308e+00 MT 14033 . T . . END=14034 GT:DP:MIN_DP:TLOD ./.:6883:6868:-3.437e+00 ./.:6130:6123:-3.769e+00 -MT 14035 . T G, . base_quality;t_lod CONTQ=93.00;DP=13098 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 ././.:6013,9,0:1.919e-04,1.644e-04:6022:base_quality;t_lod:28,7,0:327,429,0:60,60,0:30,0:0.010,0.010,1.495e-03:1.546e-04,2.599e-04,1.000:-3.415e+00,-3.483e+00 +MT 14035 . T G, . base_quality;t_lod CONTQ=93.00;DP=13098 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 ././.:6013,9,0:1.919e-04,1.644e-04:6022:base_quality;t_lod:28,7,0:327,429,0:60,60,0:30,0:-3.415e+00,-3.483e+00 MT 14036 . C . . END=14038 GT:DP:MIN_DP:TLOD ./.:6963:6876:-3.810e+00 ./.:6160:6152:-3.750e+00 -MT 14039 . A C, . base_quality;t_lod CONTQ=93.00;DP=13085 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 ././.:6015,16,0:1.662e-04,1.642e-04:6031:base_quality;t_lod:29,3,0:327,404,0:60,60,0:21,0:0.010,0.010,2.653e-03:9.161e-05,4.024e-03,0.996:-3.478e+00,-3.484e+00 +MT 14039 . A C, . base_quality;t_lod CONTQ=93.00;DP=13085 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 ././.:6015,16,0:1.662e-04,1.642e-04:6031:base_quality;t_lod:29,3,0:327,404,0:60,60,0:21,0:-3.478e+00,-3.484e+00 MT 14040 . G . . END=14043 GT:DP:MIN_DP:TLOD ./.:6963:6876:-3.810e+00 ./.:6157:6103:-3.787e+00 -MT 14044 . C T, . base_quality;t_lod CONTQ=93.00;DP=13095 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.810e+00,-3.810e+00 ././.:6050,4,0:1.953e-04,1.636e-04:6054:base_quality;t_lod:28,10,0:327,307,0:60,60,0:33,0:0.010,0.010,6.607e-04:1.291e-04,1.299e-04,1.000:-3.405e+00,-3.485e+00 +MT 14044 . C T, . base_quality;t_lod CONTQ=93.00;DP=13095 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6963,0,0:0.00,0.00:6963:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.810e+00,-3.810e+00 ././.:6050,4,0:1.953e-04,1.636e-04:6054:base_quality;t_lod:28,10,0:327,307,0:60,60,0:33,0:-3.405e+00,-3.485e+00 MT 14045 . A . . . GT:DP:MIN_DP:TLOD ./.:6963:6876:-3.810e+00 ./.:6158:6158:-3.684e+00 -MT 14046 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13114 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6901,0,0,0:0.00,0.00,0.00:6901:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-1.196e+00,-1.196e+00,-1.196e+00 ./././.:6000,48,8,0:2.041e-04,1.980e-04,1.648e-04:6056:base_quality;t_lod:28,8,7,0:327,372,346,0:60,60,60,0:18,39,0:0.010,0.010,7.937e-03:1.316e-04,0.013,0.987:-3.217e+00,-3.223e+00,-3.306e+00 -MT 14047 . A T, . base_quality;t_lod CONTQ=93.00;DP=13030 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6833,0,0:0.00,0.00:6833:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.627e+00,-2.627e+00 ././.:6008,3,0:1.652e-04,1.648e-04:6011:base_quality;t_lod:28,11,0:327,348,0:60,60,0:43,0:0.010,0.010,4.991e-04:1.899e-04,8.580e-05,1.000:-3.481e+00,-3.482e+00 +MT 14046 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13114 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6901,0,0,0:0.00,0.00,0.00:6901:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-1.196e+00,-1.196e+00,-1.196e+00 ./././.:6000,48,8,0:2.041e-04,1.980e-04,1.648e-04:6056:base_quality;t_lod:28,8,7,0:327,372,346,0:60,60,60,0:18,39,0:-3.217e+00,-3.223e+00,-3.306e+00 +MT 14047 . A T, . base_quality;t_lod CONTQ=93.00;DP=13030 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6833,0,0:0.00,0.00:6833:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.627e+00,-2.627e+00 ././.:6008,3,0:1.652e-04,1.648e-04:6011:base_quality;t_lod:28,11,0:327,348,0:60,60,0:43,0:-3.481e+00,-3.482e+00 MT 14048 . T . . . GT:DP:MIN_DP:TLOD ./.:6833:6804:-2.627e+00 ./.:6093:6093:-3.274e+00 MT 14049 . C . . . GT:DP:MIN_DP:TLOD ./.:6941:6879:-3.789e+00 ./.:6137:6137:-3.687e+00 -MT 14050 . T A, . base_quality;t_lod CONTQ=93.00;DP=13096 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6941,0,0:0.00,0.00:6941:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.789e+00,-3.789e+00 ././.:6016,7,0:1.657e-04,1.645e-04:6023:base_quality;t_lod:28,13,0:327,355,0:60,60,0:24,0:0.010,0.010,1.162e-03:9.400e-05,5.987e-04,0.999:-3.480e+00,-3.483e+00 +MT 14050 . T A, . base_quality;t_lod CONTQ=93.00;DP=13096 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6941,0,0:0.00,0.00:6941:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.789e+00,-3.789e+00 ././.:6016,7,0:1.657e-04,1.645e-04:6023:base_quality;t_lod:28,13,0:327,355,0:60,60,0:24,0:-3.480e+00,-3.483e+00 MT 14051 . C . . END=14052 GT:DP:MIN_DP:TLOD ./.:6941:6879:-3.789e+00 ./.:6147:6144:-3.784e+00 -MT 14053 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13002 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6798,0,0,0:0.00,0.00,0.00:6798:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:3.30,3.30,3.30 ./././.:5897,104,11,0:3.092e-04,1.957e-04,1.666e-04:6012:base_quality;t_lod:28,5,4,0:326,348,340,0:60,60,60,0:19,36,0:0.020,0.010,0.017:3.873e-09,1.000,4.203e-05:-3.038e+00,-3.232e+00,-3.301e+00 +MT 14053 . A C,G, . base_quality;t_lod CONTQ=93.00;DP=13002 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6798,0,0,0:0.00,0.00,0.00:6798:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:3.30,3.30,3.30 ./././.:5897,104,11,0:3.092e-04,1.957e-04,1.666e-04:6012:base_quality;t_lod:28,5,4,0:326,348,340,0:60,60,60,0:19,36,0:-3.038e+00,-3.232e+00,-3.301e+00 MT 14054 . C . . . GT:DP:MIN_DP:TLOD ./.:6969:6928:-3.792e+00 ./.:6119:6119:-3.780e+00 -MT 14055 . C A, . base_quality;t_lod CONTQ=93.00;DP=13151 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6969,0,0:0.00,0.00:6969:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6051,6,0:2.202e-04,1.636e-04:6057:base_quality;t_lod:28,18,0:326,318,0:60,60,0:39,0:0.010,0.010,9.906e-04:1.003e-03,7.172e-05,0.999:-3.355e+00,-3.485e+00 +MT 14055 . C A, . base_quality;t_lod CONTQ=93.00;DP=13151 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6969,0,0:0.00,0.00:6969:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6051,6,0:2.202e-04,1.636e-04:6057:base_quality;t_lod:28,18,0:326,318,0:60,60,0:39,0:-3.355e+00,-3.485e+00 MT 14056 . T . . . GT:DP:MIN_DP:TLOD ./.:6936:6936:-3.370e+00 ./.:6138:6116:-3.784e+00 MT 14057 . C . . END=14058 GT:DP:MIN_DP:TLOD ./.:7003:7001:-3.771e+00 ./.:6138:6116:-3.784e+00 -MT 14059 . A C, . base_quality;t_lod CONTQ=93.00;DP=13140 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6946,0,0:0.00,0.00:6946:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.437e+00,-3.437e+00 ././.:5995,32,0:2.391e-04,1.650e-04:6027:base_quality;t_lod:28,9,0:326,359,0:60,60,0:13,0:0.010,0.010,5.309e-03:1.019e-04,0.017,0.983:-3.333e+00,-3.482e+00 -MT 14060 . T A, . base_quality;t_lod CONTQ=93.00;DP=13122 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6990,0,0:0.00,0.00:6990:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.820e+00,-3.820e+00 ././.:6005,8,0:1.755e-04,1.648e-04:6013:base_quality;t_lod:28,12,0:326,448,0:60,60,0:24,0:0.010,0.010,1.330e-03:1.940e-04,2.004e-04,1.000:-3.455e+00,-3.482e+00 -MT 14061 . C A, . base_quality;t_lod CONTQ=93.00;DP=13113 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6990,0,0:0.00,0.00:6990:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.820e+00,-3.820e+00 ././.:6042,4,0:1.646e-04,1.641e-04:6046:base_quality;t_lod:28,10,0:326,276,0:60,60,0:8,0:0.00,0.010,6.616e-04:1.445e-03,5.253e-05,0.999:-3.482e+00,-3.484e+00 +MT 14059 . A C, . base_quality;t_lod CONTQ=93.00;DP=13140 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6946,0,0:0.00,0.00:6946:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.437e+00,-3.437e+00 ././.:5995,32,0:2.391e-04,1.650e-04:6027:base_quality;t_lod:28,9,0:326,359,0:60,60,0:13,0:-3.333e+00,-3.482e+00 +MT 14060 . T A, . base_quality;t_lod CONTQ=93.00;DP=13122 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6990,0,0:0.00,0.00:6990:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.820e+00,-3.820e+00 ././.:6005,8,0:1.755e-04,1.648e-04:6013:base_quality;t_lod:28,12,0:326,448,0:60,60,0:24,0:-3.455e+00,-3.482e+00 +MT 14061 . C A, . base_quality;t_lod CONTQ=93.00;DP=13113 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6990,0,0:0.00,0.00:6990:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.820e+00,-3.820e+00 ././.:6042,4,0:1.646e-04,1.641e-04:6046:base_quality;t_lod:28,10,0:326,276,0:60,60,0:8,0:-3.482e+00,-3.484e+00 MT 14062 . A . . . GT:DP:MIN_DP:TLOD ./.:6990:6930:-3.820e+00 ./.:6110:6110:-3.758e+00 -MT 14063 . T A, . base_quality;t_lod CONTQ=93.00;DP=13142 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6976,0,0:0.00,0.00:6976:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.388e+00,-3.388e+00 ././.:6009,5,0:1.656e-04,1.650e-04:6014:base_quality;t_lod:28,2,0:326,387,0:60,60,0:6,0:0.010,0.010,8.314e-04:1.123e-04,2.168e-04,1.000:-3.480e+00,-3.481e+00 +MT 14063 . T A, . base_quality;t_lod CONTQ=93.00;DP=13142 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6976,0,0:0.00,0.00:6976:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.388e+00,-3.388e+00 ././.:6009,5,0:1.656e-04,1.650e-04:6014:base_quality;t_lod:28,2,0:326,387,0:60,60,0:6,0:-3.480e+00,-3.481e+00 MT 14064 . C . . . GT:DP:MIN_DP:TLOD ./.:7018:7018:-3.807e+00 ./.:6113:6113:-3.737e+00 -MT 14065 . A C, . base_quality;t_lod CONTQ=93.00;DP=13144 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6996,0,0:0.00,0.00:6996:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.430e-01,-2.430e-01 ././.:5948,36,0:2.207e-04,1.663e-04:5984:base_quality;t_lod:28,7,0:326,322,0:60,60,0:20,0:0.010,0.010,6.016e-03:8.905e-05,0.089,0.911:-3.362e+00,-3.478e+00 +MT 14065 . A C, . base_quality;t_lod CONTQ=93.00;DP=13144 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6996,0,0:0.00,0.00:6996:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.430e-01,-2.430e-01 ././.:5948,36,0:2.207e-04,1.663e-04:5984:base_quality;t_lod:28,7,0:326,322,0:60,60,0:20,0:-3.362e+00,-3.478e+00 MT 14066 . C . . END=14067 GT:DP:MIN_DP:TLOD ./.:7051:7038:-3.758e+00 ./.:6128:6114:-3.763e+00 MT 14068 . T . . . GT:DP:MIN_DP:TLOD ./.:7016:7016:-3.351e+00 ./.:6128:6114:-3.763e+00 MT 14069 . C . . . GT:DP:MIN_DP:TLOD ./.:7013:7013:-3.634e+00 ./.:6128:6114:-3.763e+00 MT 14070 . A . . . GT:DP:MIN_DP:TLOD ./.:7046:7046:-3.032e+00 ./.:6128:6114:-3.763e+00 -MT 14071 . A C, . base_quality;t_lod CONTQ=93.00;DP=13142 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7001,0,0:0.00,0.00:7001:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.548e+00,-1.548e+00 ././.:5930,43,0:1.791e-04,1.666e-04:5973:base_quality;t_lod:28,7,0:326,371,0:60,60,0:29,0:0.010,0.010,7.199e-03:4.601e-06,0.940,0.060:-3.447e+00,-3.477e+00 +MT 14071 . A C, . base_quality;t_lod CONTQ=93.00;DP=13142 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7001,0,0:0.00,0.00:7001:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.548e+00,-1.548e+00 ././.:5930,43,0:1.791e-04,1.666e-04:5973:base_quality;t_lod:28,7,0:326,371,0:60,60,0:29,0:-3.447e+00,-3.477e+00 MT 14072 . C . . . GT:DP:MIN_DP:TLOD ./.:7087:7074:-3.797e+00 ./.:6128:6128:-3.780e+00 -MT 14073 . C A, . base_quality;t_lod CONTQ=93.00;DP=13223 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7087,0,0:0.00,0.00:7087:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.797e+00,-3.797e+00 ././.:5979,9,0:2.120e-04,1.654e-04:5988:base_quality;t_lod:28,12,0:326,275,0:60,60,0:30,0:0.010,0.010,1.503e-03:1.014e-04,5.970e-04,0.999:-3.370e+00,-3.480e+00 +MT 14073 . C A, . base_quality;t_lod CONTQ=93.00;DP=13223 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7087,0,0:0.00,0.00:7087:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.797e+00,-3.797e+00 ././.:5979,9,0:2.120e-04,1.654e-04:5988:base_quality;t_lod:28,12,0:326,275,0:60,60,0:30,0:-3.370e+00,-3.480e+00 MT 14074 . C . . . GT:DP:MIN_DP:TLOD ./.:7083:7083:-2.918e+00 ./.:6119:6111:-3.783e+00 MT 14075 . A . . . GT:DP:MIN_DP:TLOD ./.:7058:7058:-3.745e+00 ./.:6119:6111:-3.783e+00 -MT 14076 . A C, . base_quality;t_lod CONTQ=93.00;DP=13172 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7023,0,0:0.00,0.00:7023:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.997e+00,-2.997e+00 ././.:5958,18,0:2.323e-04,1.659e-04:5976:base_quality;t_lod:28,7,0:326,339,0:60,60,0:33,0:0.010,0.010,3.012e-03:1.762e-04,4.923e-04,0.999:-3.335e+00,-3.479e+00 +MT 14076 . A C, . base_quality;t_lod CONTQ=93.00;DP=13172 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7023,0,0:0.00,0.00:7023:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.997e+00,-2.997e+00 ././.:5958,18,0:2.323e-04,1.659e-04:5976:base_quality;t_lod:28,7,0:326,339,0:60,60,0:33,0:-3.335e+00,-3.479e+00 MT 14077 . A . . . GT:DP:MIN_DP:TLOD ./.:7011:7011:-3.003e+00 ./.:6085:6085:-3.493e+00 -MT 14078 . A C, . base_quality;t_lod CONTQ=93.00;DP=13114 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6990,0,0:0.00,0.00:6990:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.860e+00,-2.860e+00 ././.:5937,24,0:1.703e-04,1.666e-04:5961:base_quality;t_lod:28,8,0:326,327,0:60,60,0:28,0:0.010,0.010,4.026e-03:7.502e-05,0.075,0.925:-3.468e+00,-3.477e+00 +MT 14078 . A C, . base_quality;t_lod CONTQ=93.00;DP=13114 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6990,0,0:0.00,0.00:6990:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.860e+00,-2.860e+00 ././.:5937,24,0:1.703e-04,1.666e-04:5961:base_quality;t_lod:28,8,0:326,327,0:60,60,0:28,0:-3.468e+00,-3.477e+00 MT 14079 . A . . . GT:DP:MIN_DP:TLOD ./.:6932:6932:-3.524e+00 ./.:6047:6047:-3.677e+00 -MT 14080 . G T, . base_quality;t_lod CONTQ=93.00;DP=13033 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6915,0,0:0.00,0.00:6915:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.276e+00,-3.276e+00 ././.:5931,11,0:1.809e-04,1.668e-04:5942:base_quality;t_lod:28,13,0:326,349,0:60,60,0:40,0:0.010,0.010,1.851e-03:1.549e-04,3.185e-04,1.000:-3.442e+00,-3.477e+00 +MT 14080 . G T, . base_quality;t_lod CONTQ=93.00;DP=13033 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6915,0,0:0.00,0.00:6915:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.276e+00,-3.276e+00 ././.:5931,11,0:1.809e-04,1.668e-04:5942:base_quality;t_lod:28,13,0:326,349,0:60,60,0:40,0:-3.442e+00,-3.477e+00 MT 14081 . G . . END=14086 GT:DP:MIN_DP:TLOD ./.:6944:6832:-3.833e+00 ./.:6017:5970:-3.774e+00 MT 14087 . T . . . GT:DP:MIN_DP:TLOD ./.:6886:6886:-3.480e+00 ./.:6017:5970:-3.774e+00 -MT 14088 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=12979 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6898,0,0,0:0.00,0.00,0.00:6898:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.701e+00,-3.701e+00,-3.701e+00 ./././.:5879,15,21,0:1.782e-04,1.986e-04,1.681e-04:5915:base_quality;t_lod:28,11,7,0:328,273,328,0:60,60,60,0:36,23,0:0.010,0.010,3.559e-03:0.045,7.751e-05,0.955:-3.272e+00,-3.224e+00,-3.297e+00 +MT 14088 . T A,C, . base_quality;t_lod CONTQ=93.00;DP=12979 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6898,0,0,0:0.00,0.00,0.00:6898:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.701e+00,-3.701e+00,-3.701e+00 ./././.:5879,15,21,0:1.782e-04,1.986e-04,1.681e-04:5915:base_quality;t_lod:28,11,7,0:328,273,328,0:60,60,60,0:36,23,0:-3.272e+00,-3.224e+00,-3.297e+00 MT 14089 . A . . . GT:DP:MIN_DP:TLOD ./.:6898:6896:-3.701e+00 ./.:6910:6910:-3.701e+00 MT 14090 . A . . . GT:DP:MIN_DP:TLOD ./.:6875:6869:-2.876e+00 ./.:6891:6891:-3.103e+00 MT 14091 . A . . . GT:DP:MIN_DP:TLOD ./.:6875:6869:-2.876e+00 ./.:6864:6864:-2.528e+00 @@ -8387,60 +8383,60 @@ MT 14166 . T . . . GT:DP:MIN_DP:TLOD ./.:6882:6882:-3.383e+00 ./.:6922 MT 14167 . C . . . GT:DP:MIN_DP:TLOD ./.:6978:6959:-3.797e+00 ./.:6990:6990:-3.285e+00 MT 14168 . T . . END=14174 GT:DP:MIN_DP:TLOD ./.:6978:6959:-3.797e+00 ./.:7028:6993:-3.827e+00 MT 14175 . C . . . GT:DP:MIN_DP:TLOD ./.:6967:6967:-3.221e+00 ./.:7028:6993:-3.827e+00 -MT 14176 . A C, . base_quality;t_lod CONTQ=93.00;DP=13194 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6020,20,0:2.272e-04,1.639e-04:6040:base_quality;t_lod:29,9,0:333,325,0:60,60,0:23,0:0.010,0.010,3.311e-03:1.811e-04,5.002e-04,0.999:-3.337e+00,-3.484e+00 +MT 14176 . A C, . base_quality;t_lod CONTQ=93.00;DP=13194 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6020,20,0:2.272e-04,1.639e-04:6040:base_quality;t_lod:29,9,0:333,325,0:60,60,0:23,0:-3.337e+00,-3.484e+00 MT 14177 . A . . . GT:DP:MIN_DP:TLOD ./.:6998:6967:-3.792e+00 ./.:6193:6193:-3.664e+00 -MT 14178 . T C, . base_quality;t_lod CONTQ=93.00;DP=13188 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6039,13,0:1.907e-04,1.639e-04:6052:base_quality;t_lod:29,8,0:334,385,0:60,60,0:20,0:0.010,0.010,2.148e-03:2.293e-04,2.621e-04,1.000:-3.417e+00,-3.484e+00 +MT 14178 . T C, . base_quality;t_lod CONTQ=93.00;DP=13188 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6039,13,0:1.907e-04,1.639e-04:6052:base_quality;t_lod:29,8,0:334,385,0:60,60,0:20,0:-3.417e+00,-3.484e+00 MT 14179 . A . . END=14182 GT:DP:MIN_DP:TLOD ./.:6998:6967:-3.792e+00 ./.:6188:6185:-3.778e+00 -MT 14183 . A G, . base_quality;t_lod CONTQ=93.00;DP=13199 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6038,10,0:2.050e-04,1.637e-04:6048:base_quality;t_lod:28,7,0:334,323,0:60,60,0:48,0:0.010,0.010,1.653e-03:2.163e-04,1.826e-04,1.000:-3.380e+00,-3.485e+00 +MT 14183 . A G, . base_quality;t_lod CONTQ=93.00;DP=13199 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6038,10,0:2.050e-04,1.637e-04:6048:base_quality;t_lod:28,7,0:334,323,0:60,60,0:48,0:-3.380e+00,-3.485e+00 MT 14184 . C . . END=14185 GT:DP:MIN_DP:TLOD ./.:6998:6967:-3.792e+00 ./.:6232:6224:-3.785e+00 MT 14186 . C . . . GT:DP:MIN_DP:TLOD ./.:6998:6967:-3.792e+00 ./.:6259:6259:-3.458e+00 -MT 14187 . C A, . base_quality;t_lod CONTQ=93.00;DP=13223 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.792e+00,-3.792e+00 ././.:6095,4,0:1.629e-04,1.625e-04:6099:base_quality;t_lod:28,13,0:334,267,0:60,60,0:16,0:0.010,0.010,6.558e-04:7.778e-05,2.927e-04,1.000:-3.487e+00,-3.488e+00 +MT 14187 . C A, . base_quality;t_lod CONTQ=93.00;DP=13223 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6998,0,0:0.00,0.00:6998:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.792e+00,-3.792e+00 ././.:6095,4,0:1.629e-04,1.625e-04:6099:base_quality;t_lod:28,13,0:334,267,0:60,60,0:16,0:-3.487e+00,-3.488e+00 MT 14188 . A . . . GT:DP:MIN_DP:TLOD ./.:6998:6967:-3.792e+00 ./.:6299:6284:-3.788e+00 MT 14189 . A . . . GT:DP:MIN_DP:TLOD ./.:7052:7052:-3.150e+00 ./.:6299:6284:-3.788e+00 MT 14190 . C . . . GT:DP:MIN_DP:TLOD ./.:7008:7008:-3.830e+00 ./.:6299:6284:-3.788e+00 MT 14191 . A . . . GT:DP:MIN_DP:TLOD ./.:7048:7048:-2.622e+00 ./.:6299:6284:-3.788e+00 -MT 14192 . A C, . base_quality;t_lod CONTQ=93.00;DP=13261 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7025,0,0:0.00,0.00:7025:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.463e+00,-3.463e+00 ././.:6087,35,0:2.078e-04,1.624e-04:6122:base_quality;t_lod:28,9,0:334,329,0:60,60,0:24,0:0.010,0.010,5.717e-03:1.244e-04,6.735e-03,0.993:-3.386e+00,-3.489e+00 +MT 14192 . A C, . base_quality;t_lod CONTQ=93.00;DP=13261 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7025,0,0:0.00,0.00:7025:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.463e+00,-3.463e+00 ././.:6087,35,0:2.078e-04,1.624e-04:6122:base_quality;t_lod:28,9,0:334,329,0:60,60,0:24,0:-3.386e+00,-3.489e+00 MT 14193 . A . . END=14195 GT:DP:MIN_DP:TLOD ./.:7025:6968:-3.463e+00 ./.:6297:6283:-3.796e+00 -MT 14196 . A C, . base_quality;t_lod CONTQ=93.00;DP=13142 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6900,0,0:0.00,0.00:6900:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.696e+00,-3.696e+00 ././.:6120,30,0:2.350e-04,1.616e-04:6150:base_quality;t_lod:28,8,0:334,306,0:60,60,0:28,0:0.010,0.010,4.878e-03:4.377e-05,0.408,0.592:-3.332e+00,-3.491e+00 +MT 14196 . A C, . base_quality;t_lod CONTQ=93.00;DP=13142 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6900,0,0:0.00,0.00:6900:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.696e+00,-3.696e+00 ././.:6120,30,0:2.350e-04,1.616e-04:6150:base_quality;t_lod:28,8,0:334,306,0:60,60,0:28,0:-3.332e+00,-3.491e+00 MT 14197 . T . . END=14198 GT:DP:MIN_DP:TLOD ./.:6900:6820:-3.696e+00 ./.:6238:6217:-3.785e+00 -MT 14199 . T A, . base_quality;t_lod CONTQ=93.00;DP=13245 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6913,0,0:0.00,0.00:6913:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.234e+00,-3.234e+00 ././.:6157,6,0:2.004e-04,1.612e-04:6163:base_quality;t_lod:28,13,0:334,417,0:60,60,0:47,0:0.010,0.010,9.736e-04:1.041e-03,6.924e-05,0.999:-3.390e+00,-3.491e+00 +MT 14199 . T A, . base_quality;t_lod CONTQ=93.00;DP=13245 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6913,0,0:0.00,0.00:6913:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.234e+00,-3.234e+00 ././.:6157,6,0:2.004e-04,1.612e-04:6163:base_quality;t_lod:28,13,0:334,417,0:60,60,0:47,0:-3.390e+00,-3.491e+00 MT 14200 . T . . . GT:DP:MIN_DP:TLOD ./.:6977:6937:-3.774e+00 ./.:6294:6294:-3.769e+00 -MT 14201 . C A, . base_quality;t_lod CONTQ=93.00;DP=13293 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6977,0,0:0.00,0.00:6977:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.774e+00,-3.774e+00 ././.:6180,3,0:1.605e-04,1.602e-04:6183:base_quality;t_lod:28,11,0:334,297,0:60,60,0:14,0:0.00,0.010,4.852e-04:7.751e-04,5.106e-05,0.999:-3.493e+00,-3.494e+00 +MT 14201 . C A, . base_quality;t_lod CONTQ=93.00;DP=13293 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6977,0,0:0.00,0.00:6977:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.774e+00,-3.774e+00 ././.:6180,3,0:1.605e-04,1.602e-04:6183:base_quality;t_lod:28,11,0:334,297,0:60,60,0:14,0:-3.493e+00,-3.494e+00 MT 14202 . A . . . GT:DP:MIN_DP:TLOD ./.:7041:7041:-3.428e+00 ./.:6365:6365:-3.790e+00 -MT 14203 . A C, . base_quality;t_lod CONTQ=93.00;DP=13310 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7052,0,0:0.00,0.00:7052:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.761e+00,-3.761e+00 ././.:6185,20,0:1.910e-04,1.600e-04:6205:base_quality;t_lod:28,8,0:334,370,0:60,60,0:45,0:0.010,0.010,3.223e-03:6.164e-05,0.092,0.908:-3.417e+00,-3.495e+00 -MT 14204 . C A, . base_quality;t_lod CONTQ=93.00;DP=13334 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7052,0,0:0.00,0.00:7052:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.761e+00,-3.761e+00 ././.:6214,5,0:2.470e-04,1.593e-04:6219:base_quality;t_lod:28,14,0:334,269,0:60,60,0:31,0:0.010,0.010,8.040e-04:5.163e-04,7.216e-05,0.999:-3.291e+00,-3.497e+00 +MT 14203 . A C, . base_quality;t_lod CONTQ=93.00;DP=13310 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7052,0,0:0.00,0.00:7052:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.761e+00,-3.761e+00 ././.:6185,20,0:1.910e-04,1.600e-04:6205:base_quality;t_lod:28,8,0:334,370,0:60,60,0:45,0:-3.417e+00,-3.495e+00 +MT 14204 . C A, . base_quality;t_lod CONTQ=93.00;DP=13334 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7052,0,0:0.00,0.00:7052:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.761e+00,-3.761e+00 ././.:6214,5,0:2.470e-04,1.593e-04:6219:base_quality;t_lod:28,14,0:334,269,0:60,60,0:31,0:-3.291e+00,-3.497e+00 MT 14205 . C . . END=14207 GT:DP:MIN_DP:TLOD ./.:7052:6954:-3.761e+00 ./.:6369:6296:-3.787e+00 -MT 14208 . T A, . base_quality;t_lod CONTQ=93.00;DP=13385 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7052,0,0:0.00,0.00:7052:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.761e+00,-3.761e+00 ././.:6202,10,0:1.743e-04,1.593e-04:6212:base_quality;t_lod:28,13,0:334,406,0:60,60,0:7,0:0.010,0.010,1.610e-03:8.493e-03,6.097e-05,0.991:-3.459e+00,-3.497e+00 +MT 14208 . T A, . base_quality;t_lod CONTQ=93.00;DP=13385 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7052,0,0:0.00,0.00:7052:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.761e+00,-3.761e+00 ././.:6202,10,0:1.743e-04,1.593e-04:6212:base_quality;t_lod:28,13,0:334,406,0:60,60,0:7,0:-3.459e+00,-3.497e+00 MT 14209 . A . . . GT:DP:MIN_DP:TLOD ./.:7052:6954:-3.761e+00 ./.:6376:6376:-3.676e+00 -MT 14210 . A C, . base_quality;t_lod CONTQ=93.00;DP=13472 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7042,0,0:0.00,0.00:7042:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.499e+00,-3.499e+00 ././.:6218,18,0:1.679e-04,1.588e-04:6236:base_quality;t_lod:28,7,0:334,345,0:60,60,0:38,0:0.010,0.010,2.886e-03:9.083e-05,3.926e-03,0.996:-3.474e+00,-3.498e+00 +MT 14210 . A C, . base_quality;t_lod CONTQ=93.00;DP=13472 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7042,0,0:0.00,0.00:7042:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.499e+00,-3.499e+00 ././.:6218,18,0:1.679e-04,1.588e-04:6236:base_quality;t_lod:28,7,0:334,345,0:60,60,0:38,0:-3.474e+00,-3.498e+00 MT 14211 . C . . . GT:DP:MIN_DP:TLOD ./.:7018:7018:-3.839e+00 ./.:6385:6385:-3.746e+00 -MT 14212 . T C, . PASS CONTQ=93.00;DP=13450 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7037,0,0:0.00,0.00:7037:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:0.614,0.614 ././.:28,6218,0:0.996,1.586e-04:6246:28,28,0:326,334,0:60,60,0:37,0:0.990,0.990,0.996:0.023,0.026,0.951:20182.27,-3.499e+00 -MT 14213 . A C, . base_quality;t_lod CONTQ=93.00;DP=13416 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7043,0,0:0.00,0.00:7043:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.803e+00,-3.803e+00 ././.:6216,14,0:2.033e-04,1.589e-04:6230:base_quality;t_lod:29,8,0:334,329,0:60,60,0:25,0:0.010,0.010,2.247e-03:1.274e-03,1.080e-04,0.999:-3.394e+00,-3.498e+00 +MT 14212 . T C, . PASS CONTQ=93.00;DP=13450 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7037,0,0:0.00,0.00:7037:.,.,.:.,.,.:.,.,.:.,.:0.614,0.614 ././.:28,6218,0:0.996,1.586e-04:6246:28,28,0:326,334,0:60,60,0:37,0:20182.27,-3.499e+00 +MT 14213 . A C, . base_quality;t_lod CONTQ=93.00;DP=13416 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7043,0,0:0.00,0.00:7043:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.803e+00,-3.803e+00 ././.:6216,14,0:2.033e-04,1.589e-04:6230:base_quality;t_lod:29,8,0:334,329,0:60,60,0:25,0:-3.394e+00,-3.498e+00 MT 14214 . C . . . GT:DP:MIN_DP:TLOD ./.:7043:7000:-3.803e+00 ./.:6358:6358:-3.798e+00 MT 14215 . T . . . GT:DP:MIN_DP:TLOD ./.:7043:7000:-3.803e+00 ./.:6361:6361:-3.347e+00 MT 14216 . A . . END=14222 GT:DP:MIN_DP:TLOD ./.:7043:7000:-3.803e+00 ./.:6374:6347:-3.786e+00 MT 14223 . A . . . GT:DP:MIN_DP:TLOD ./.:7000:6950:-3.450e+00 ./.:6374:6347:-3.786e+00 -MT 14224 . A C, . base_quality;t_lod CONTQ=93.00;DP=13330 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.450e+00,-3.450e+00 ././.:6168,40,0:1.923e-04,1.607e-04:6208:base_quality;t_lod:28,5,0:332,365,0:60,60,0:31,0:0.010,0.010,6.443e-03:5.765e-09,1.000,9.831e-05:-3.415e+00,-3.493e+00 +MT 14224 . A C, . base_quality;t_lod CONTQ=93.00;DP=13330 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.450e+00,-3.450e+00 ././.:6168,40,0:1.923e-04,1.607e-04:6208:base_quality;t_lod:28,5,0:332,365,0:60,60,0:31,0:-3.415e+00,-3.493e+00 MT 14225 . C . . . GT:DP:MIN_DP:TLOD ./.:6977:6977:-3.722e+00 ./.:6339:6216:-3.800e+00 MT 14226 . G . . . GT:DP:MIN_DP:TLOD ./.:6797:6797:-3.145e+00 ./.:6339:6216:-3.800e+00 MT 14227 . C . . . GT:DP:MIN_DP:TLOD ./.:7014:7014:-3.723e+00 ./.:6339:6216:-3.800e+00 -MT 14228 . C A, . base_quality;t_lod CONTQ=93.00;DP=13461 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.314e+00,-3.314e+00 ././.:6228,2,0:1.592e-04,1.590e-04:6230:base_quality;t_lod:28,13,0:331,375,0:60,60,0:16,0:0.010,0.010,3.210e-04:9.826e-05,1.232e-04,1.000:-3.497e+00,-3.498e+00 +MT 14228 . C A, . base_quality;t_lod CONTQ=93.00;DP=13461 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7071,0,0:0.00,0.00:7071:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.314e+00,-3.314e+00 ././.:6228,2,0:1.592e-04,1.590e-04:6230:base_quality;t_lod:28,13,0:331,375,0:60,60,0:16,0:-3.497e+00,-3.498e+00 MT 14229 . C . . . GT:DP:MIN_DP:TLOD ./.:7024:6977:-3.826e+00 ./.:6369:6369:-3.795e+00 -MT 14230 . A C, . base_quality;t_lod CONTQ=93.00;DP=13367 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7024,0,0:0.00,0.00:7024:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.826e+00,-3.826e+00 ././.:6211,18,0:1.848e-04,1.594e-04:6229:base_quality;t_lod:28,6,0:330,328,0:60,60,0:21,0:0.010,0.010,2.890e-03:2.088e-04,3.606e-04,0.999:-3.434e+00,-3.497e+00 +MT 14230 . A C, . base_quality;t_lod CONTQ=93.00;DP=13367 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7024,0,0:0.00,0.00:7024:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.826e+00,-3.826e+00 ././.:6211,18,0:1.848e-04,1.594e-04:6229:base_quality;t_lod:28,6,0:330,328,0:60,60,0:21,0:-3.434e+00,-3.497e+00 MT 14231 . T . . . GT:DP:MIN_DP:TLOD ./.:7024:6977:-3.826e+00 ./.:6378:6371:-3.762e+00 MT 14232 . A . . . GT:DP:MIN_DP:TLOD ./.:6993:6993:-3.496e+00 ./.:6378:6371:-3.762e+00 -MT 14233 . A C, . base_quality;t_lod CONTQ=93.00;DP=13320 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6948,0,0:0.00,0.00:6948:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.736e+00,-3.736e+00 ././.:6194,31,0:1.966e-04,1.599e-04:6225:base_quality;t_lod:28,8,0:331,307,0:60,60,0:32,0:0.010,0.010,4.980e-03:1.129e-04,5.672e-03,0.994:-3.406e+00,-3.495e+00 +MT 14233 . A C, . base_quality;t_lod CONTQ=93.00;DP=13320 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6948,0,0:0.00,0.00:6948:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.736e+00,-3.736e+00 ././.:6194,31,0:1.966e-04,1.599e-04:6225:base_quality;t_lod:28,8,0:331,307,0:60,60,0:32,0:-3.406e+00,-3.495e+00 MT 14234 . T . . . GT:DP:MIN_DP:TLOD ./.:6948:6933:-3.736e+00 ./.:6368:6332:-3.802e+00 MT 14235 . C . . . GT:DP:MIN_DP:TLOD ./.:6982:6982:-3.362e+00 ./.:6368:6332:-3.802e+00 MT 14236 . A . . END=14240 GT:DP:MIN_DP:TLOD ./.:6991:6955:-3.829e+00 ./.:6368:6332:-3.802e+00 -MT 14241 . A C, . base_quality;t_lod CONTQ=93.00;DP=13342 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6966,0,0:0.00,0.00:6966:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.183e+00,-3.183e+00 ././.:6169,42,0:1.717e-04,1.603e-04:6211:base_quality;t_lod:28,7,0:329,351,0:60,60,0:18,0:0.010,0.010,6.762e-03:6.090e-06,0.918,0.082:-3.465e+00,-3.494e+00 +MT 14241 . A C, . base_quality;t_lod CONTQ=93.00;DP=13342 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6966,0,0:0.00,0.00:6966:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.183e+00,-3.183e+00 ././.:6169,42,0:1.717e-04,1.603e-04:6211:base_quality;t_lod:28,7,0:329,351,0:60,60,0:18,0:-3.465e+00,-3.494e+00 MT 14242 . A . . . GT:DP:MIN_DP:TLOD ./.:6861:6861:-3.652e+00 ./.:6317:6317:-3.748e+00 -MT 14243 . G A, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=13185 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6808,0,0:0.00,0.00:6808:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.343e+00,-3.343e+00 ././.:6170,25,0:1.842e-04,1.606e-04:6195:base_quality;strand_artifact;t_lod:28,13,0:329,397,0:60,60,0:18,0:0.00,0.010,4.036e-03:0.998,1.257e-07,2.255e-03:-3.434e+00,-3.493e+00 +MT 14243 . G A, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=13185 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6808,0,0:0.00,0.00:6808:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.343e+00,-3.343e+00 ././.:6170,25,0:1.842e-04,1.606e-04:6195:base_quality;strand_artifact;t_lod:28,13,0:329,397,0:60,60,0:18,0:-3.434e+00,-3.493e+00 MT 14244 . C . . END=14245 GT:DP:MIN_DP:TLOD ./.:7010:6891:-3.662e+00 ./.:6319:6284:-3.795e+00 -MT 14246 . C A, . base_quality;t_lod CONTQ=93.00;DP=13277 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7010,0,0:0.00,0.00:7010:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.662e+00,-3.662e+00 ././.:6218,5,0:1.598e-04,1.593e-04:6223:base_quality;t_lod:28,11,0:330,382,0:60,60,0:15,0:0.010,0.010,8.035e-04:1.618e-04,1.310e-04,1.000:-3.495e+00,-3.497e+00 +MT 14246 . C A, . base_quality;t_lod CONTQ=93.00;DP=13277 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7010,0,0:0.00,0.00:7010:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.662e+00,-3.662e+00 ././.:6218,5,0:1.598e-04,1.593e-04:6223:base_quality;t_lod:28,11,0:330,382,0:60,60,0:15,0:-3.495e+00,-3.497e+00 MT 14247 . C . . . GT:DP:MIN_DP:TLOD ./.:7010:6891:-3.662e+00 ./.:6337:6325:-3.794e+00 MT 14248 . C . . . GT:DP:MIN_DP:TLOD ./.:6972:6972:-3.444e+00 ./.:6337:6325:-3.794e+00 -MT 14249 . G T, . base_quality;t_lod CONTQ=93.00;DP=13064 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6991,0,0:0.00,0.00:6991:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.784e+00,-3.784e+00 ././.:6190,9,0:2.218e-04,1.608e-04:6199:base_quality;t_lod:24,15,0:329,464,0:60,60,0:20,0:0.010,0.010,1.452e-03:8.458e-04,8.991e-05,0.999:-3.348e+00,-3.493e+00 +MT 14249 . G T, . base_quality;t_lod CONTQ=93.00;DP=13064 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6991,0,0:0.00,0.00:6991:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.784e+00,-3.784e+00 ././.:6190,9,0:2.218e-04,1.608e-04:6199:base_quality;t_lod:24,15,0:329,464,0:60,60,0:20,0:-3.348e+00,-3.493e+00 MT 14250 . C . . END=14257 GT:DP:MIN_DP:TLOD ./.:6991:6667:-3.784e+00 ./.:7004:6954:-3.818e+00 MT 14258 . G . . END=14259 GT:DP:MIN_DP:TLOD ./.:6854:6786:-3.473e+00 ./.:6857:6839:-3.409e+00 MT 14260 . A . . END=14261 GT:DP:MIN_DP:TLOD ./.:6854:6786:-3.473e+00 ./.:6977:6863:-3.804e+00 @@ -8766,126 +8762,126 @@ MT 14723 . T . . END=14727 GT:DP:MIN_DP:TLOD ./.:7128:6935:-3.836e+00 MT 14728 . T . . . GT:DP:MIN_DP:TLOD ./.:7128:6935:-3.836e+00 ./.:7115:7115:-3.470e+00 MT 14729 . T . . END=14733 GT:DP:MIN_DP:TLOD ./.:7128:6935:-3.836e+00 ./.:7145:7117:-3.790e+00 MT 14734 . T . . . GT:DP:MIN_DP:TLOD ./.:7128:6935:-3.836e+00 ./.:7164:7164:-3.384e+00 -MT 14735 . A C, . base_quality;t_lod CONTQ=93.00;DP=13310 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7128,0,0:0.00,0.00:7128:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.836e+00,-3.836e+00 ././.:6220,1,0:1.593e-04,1.591e-04:6221:base_quality;t_lod:29,7,0:330,466,0:60,60,0:37,0:0.00,0.010,1.607e-04:1.532e-04,4.893e-05,1.000:-3.497e+00,-3.497e+00 +MT 14735 . A C, . base_quality;t_lod CONTQ=93.00;DP=13310 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7128,0,0:0.00,0.00:7128:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.836e+00,-3.836e+00 ././.:6220,1,0:1.593e-04,1.591e-04:6221:base_quality;t_lod:29,7,0:330,466,0:60,60,0:37,0:-3.497e+00,-3.497e+00 MT 14736 . C . . END=14738 GT:DP:MIN_DP:TLOD ./.:7128:6935:-3.836e+00 ./.:6401:6378:-3.803e+00 MT 14739 . G . . . GT:DP:MIN_DP:TLOD ./.:7126:7126:-3.385e+00 ./.:6401:6378:-3.803e+00 MT 14740 . A . . END=14743 GT:DP:MIN_DP:TLOD ./.:7175:7154:-3.766e+00 ./.:6401:6378:-3.803e+00 -MT 14744 . C A, . base_quality;t_lod CONTQ=93.00;DP=13599 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.766e+00,-3.766e+00 ././.:6262,5,0:1.678e-04,1.579e-04:6267:base_quality;t_lod:28,13,0:331,276,0:60,60,0:42,0:0.010,0.010,7.978e-04:2.104e-04,1.044e-04,1.000:-3.474e+00,-3.501e+00 +MT 14744 . C A, . base_quality;t_lod CONTQ=93.00;DP=13599 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7175,0,0:0.00,0.00:7175:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.766e+00,-3.766e+00 ././.:6262,5,0:1.678e-04,1.579e-04:6267:base_quality;t_lod:28,13,0:331,276,0:60,60,0:42,0:-3.474e+00,-3.501e+00 MT 14745 . C . . . GT:DP:MIN_DP:TLOD ./.:7175:7154:-3.766e+00 ./.:6401:6361:-3.786e+00 MT 14746 . A . . . GT:DP:MIN_DP:TLOD ./.:7162:7162:-3.435e+00 ./.:6401:6361:-3.786e+00 MT 14747 . A . . END=14748 GT:DP:MIN_DP:TLOD ./.:7082:6877:-3.820e+00 ./.:6401:6361:-3.786e+00 -MT 14749 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13327 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7082,0,0,0:0.00,0.00,0.00:7082:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.820e+00,-3.820e+00,-3.820e+00 ./././.:6253,11,2,0:1.599e-04,1.588e-04,1.585e-04:6266:base_quality;t_lod:27,11,11,0:331,299,311,0:60,60,60,0:13,49,0:0.010,0.010,1.756e-03:0.020,5.683e-05,0.980:-3.319e+00,-3.322e+00,-3.323e+00 +MT 14749 . G A,T, . base_quality;t_lod CONTQ=93.00;DP=13327 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7082,0,0,0:0.00,0.00,0.00:7082:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.820e+00,-3.820e+00,-3.820e+00 ./././.:6253,11,2,0:1.599e-04,1.588e-04,1.585e-04:6266:base_quality;t_lod:27,11,11,0:331,299,311,0:60,60,60,0:13,49,0:-3.319e+00,-3.322e+00,-3.323e+00 MT 14750 . A . . END=14752 GT:DP:MIN_DP:TLOD ./.:7082:6877:-3.820e+00 ./.:6419:6347:-3.804e+00 MT 14753 . C . . . GT:DP:MIN_DP:TLOD ./.:7172:7172:-3.382e+00 ./.:6419:6347:-3.804e+00 -MT 14754 . C A, . base_quality;t_lod CONTQ=93.00;DP=13614 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7119,0,0:0.00,0.00:7119:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.682e+00,-3.682e+00 ././.:6323,15,0:2.137e-04,1.566e-04:6338:base_quality;t_lod:28,13,0:331,378,0:60,60,0:23,0:0.010,0.010,2.367e-03:2.537e-03,9.356e-05,0.997:-3.375e+00,-3.504e+00 +MT 14754 . C A, . base_quality;t_lod CONTQ=93.00;DP=13614 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7119,0,0:0.00,0.00:7119:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.682e+00,-3.682e+00 ././.:6323,15,0:2.137e-04,1.566e-04:6338:base_quality;t_lod:28,13,0:331,378,0:60,60,0:23,0:-3.375e+00,-3.504e+00 MT 14755 . A . . END=14756 GT:DP:MIN_DP:TLOD ./.:7119:7115:-3.682e+00 ./.:6439:6434:-3.754e+00 -MT 14757 . T G, . base_quality;t_lod CONTQ=93.00;DP=13607 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.467e+00,-3.467e+00 ././.:6303,15,0:1.882e-04,1.569e-04:6318:base_quality;t_lod:28,7,0:332,319,0:60,60,0:46,0:0.010,0.010,2.374e-03:2.202e-04,3.264e-04,0.999:-3.425e+00,-3.503e+00 +MT 14757 . T G, . base_quality;t_lod CONTQ=93.00;DP=13607 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.467e+00,-3.467e+00 ././.:6303,15,0:1.882e-04,1.569e-04:6318:base_quality;t_lod:28,7,0:332,319,0:60,60,0:46,0:-3.425e+00,-3.503e+00 MT 14758 . A . . . GT:DP:MIN_DP:TLOD ./.:7104:7097:-3.467e+00 ./.:6430:6362:-3.796e+00 MT 14759 . C . . . GT:DP:MIN_DP:TLOD ./.:7053:7053:-3.581e+00 ./.:6430:6362:-3.796e+00 MT 14760 . G . . END=14763 GT:DP:MIN_DP:TLOD ./.:7081:6928:-3.452e+00 ./.:6430:6362:-3.796e+00 -MT 14764 . A C, . base_quality;t_lod CONTQ=93.00;DP=13586 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7054,0,0:0.00,0.00:7054:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.616e+00,-2.616e+00 ././.:6298,44,0:1.818e-04,1.569e-04:6342:base_quality;t_lod:28,8,0:332,360,0:60,60,0:26,0:0.010,0.010,6.938e-03:9.772e-05,0.061,0.939:-3.440e+00,-3.503e+00 -MT 14765 . A C, . base_quality;t_lod CONTQ=93.00;DP=13579 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7049,0,0:0.00,0.00:7049:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.101e+00,-3.101e+00 ././.:6320,30,0:2.077e-04,1.566e-04:6350:base_quality;t_lod:28,8,0:332,377,0:60,60,0:26,0:0.010,0.010,4.724e-03:9.927e-05,0.012,0.988:-3.383e+00,-3.505e+00 -MT 14766 . C T, . PASS CONTQ=93.00;DP=13516 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6994,0,0:0.00,0.00:6994:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:0.095,0.095 ././.:55,6273,0:0.996,1.572e-04:6328:12,28,0:331,332,0:60,60,0:36,0:0.990,0.990,0.991:0.014,0.033,0.953:19301.26,-3.502e+00 -MT 14767 . T C, . base_quality;t_lod CONTQ=93.00;DP=13563 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.455e+00,-3.455e+00 ././.:6295,33,0:1.803e-04,1.572e-04:6328:base_quality;t_lod:28,8,0:331,372,0:60,60,0:14,0:0.010,0.010,5.215e-03:2.011e-04,6.946e-04,0.999:-3.445e+00,-3.502e+00 +MT 14764 . A C, . base_quality;t_lod CONTQ=93.00;DP=13586 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7054,0,0:0.00,0.00:7054:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.616e+00,-2.616e+00 ././.:6298,44,0:1.818e-04,1.569e-04:6342:base_quality;t_lod:28,8,0:332,360,0:60,60,0:26,0:-3.440e+00,-3.503e+00 +MT 14765 . A C, . base_quality;t_lod CONTQ=93.00;DP=13579 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7049,0,0:0.00,0.00:7049:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.101e+00,-3.101e+00 ././.:6320,30,0:2.077e-04,1.566e-04:6350:base_quality;t_lod:28,8,0:332,377,0:60,60,0:26,0:-3.383e+00,-3.505e+00 +MT 14766 . C T, . PASS CONTQ=93.00;DP=13516 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6994,0,0:0.00,0.00:6994:.,.,.:.,.,.:.,.,.:.,.:0.095,0.095 ././.:55,6273,0:0.996,1.572e-04:6328:12,28,0:331,332,0:60,60,0:36,0:19301.26,-3.502e+00 +MT 14767 . T C, . base_quality;t_lod CONTQ=93.00;DP=13563 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.455e+00,-3.455e+00 ././.:6295,33,0:1.803e-04,1.572e-04:6328:base_quality;t_lod:28,8,0:331,372,0:60,60,0:14,0:-3.445e+00,-3.502e+00 MT 14768 . A . . . GT:DP:MIN_DP:TLOD ./.:7054:7054:-3.679e+00 ./.:6360:6316:-3.754e+00 MT 14769 . A . . . GT:DP:MIN_DP:TLOD ./.:6877:6877:-1.705e-01 ./.:6360:6316:-3.754e+00 -MT 14770 . C A, . base_quality;t_lod CONTQ=93.00;DP=13584 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.759e+00,-3.759e+00 ././.:6329,7,0:1.572e-04,1.564e-04:6336:base_quality;t_lod:28,12,0:332,502,0:60,60,0:43,0:0.00,0.010,1.105e-03:9.457e-03,5.197e-05,0.990:-3.503e+00,-3.505e+00 -MT 14771 . C CACCTAATAAAATTAATTAACCA, . t_lod CONTQ=93.00;DP=13588 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.759e+00,-3.759e+00 ././.:6299,1,0:1.780e-04,1.560e-04:6300:t_lod:28,26,0:333,189,0:60,60,0:0,0:0.010,0.00,1.587e-04:4.720e-05,1.574e-04,1.000:-3.447e+00,-3.506e+00 +MT 14770 . C A, . base_quality;t_lod CONTQ=93.00;DP=13584 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.759e+00,-3.759e+00 ././.:6329,7,0:1.572e-04,1.564e-04:6336:base_quality;t_lod:28,12,0:332,502,0:60,60,0:43,0:-3.503e+00,-3.505e+00 +MT 14771 . C CACCTAATAAAATTAATTAACCA, . t_lod CONTQ=93.00;DP=13588 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.759e+00,-3.759e+00 ././.:6299,1,0:1.780e-04,1.560e-04:6300:t_lod:28,26,0:333,189,0:60,60,0:0,0:-3.447e+00,-3.506e+00 MT 14772 . C . . . GT:DP:MIN_DP:TLOD ./.:7164:7164:-3.486e+00 ./.:6442:6433:-3.807e+00 MT 14773 . C . . . GT:DP:MIN_DP:TLOD ./.:7168:7168:-3.783e+00 ./.:6442:6433:-3.807e+00 MT 14774 . C . . END=14775 GT:DP:MIN_DP:TLOD ./.:7115:7104:-3.458e+00 ./.:6442:6433:-3.807e+00 MT 14776 . A . . END=14779 GT:DP:MIN_DP:TLOD ./.:7100:7085:-3.694e+00 ./.:6442:6433:-3.807e+00 MT 14780 . A . . . GT:DP:MIN_DP:TLOD ./.:7090:7090:-3.354e+00 ./.:6442:6433:-3.807e+00 -MT 14781 . A C, . base_quality;t_lod CONTQ=93.00;DP=13590 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.607e+00,-3.607e+00 ././.:6409,10,0:1.593e-04,1.551e-04:6419:base_quality;t_lod:28,6,0:334,378,0:60,60,0:7,0:0.010,0.010,1.558e-03:6.348e-05,3.708e-03,0.996:-3.497e+00,-3.508e+00 +MT 14781 . A C, . base_quality;t_lod CONTQ=93.00;DP=13590 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.607e+00,-3.607e+00 ././.:6409,10,0:1.593e-04,1.551e-04:6419:base_quality;t_lod:28,6,0:334,378,0:60,60,0:7,0:-3.497e+00,-3.508e+00 MT 14782 . A . . . GT:DP:MIN_DP:TLOD ./.:7072:7072:-3.081e+00 ./.:6421:6421:-3.773e+00 -MT 14783 . T G, . base_quality;t_lod CONTQ=93.00;DP=13548 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7034,0,0:0.00,0.00:7034:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.737e+00,-3.737e+00 ././.:6320,8,0:2.225e-04,1.566e-04:6328:base_quality;t_lod:28,12,0:334,439,0:60,60,0:27,0:0.010,0.010,1.264e-03:1.950e-03,7.033e-05,0.998:-3.347e+00,-3.504e+00 +MT 14783 . T G, . base_quality;t_lod CONTQ=93.00;DP=13548 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7034,0,0:0.00,0.00:7034:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.737e+00,-3.737e+00 ././.:6320,8,0:2.225e-04,1.566e-04:6328:base_quality;t_lod:28,12,0:334,439,0:60,60,0:27,0:-3.347e+00,-3.504e+00 MT 14784 . T . . . GT:DP:MIN_DP:TLOD ./.:7042:7042:-3.443e+00 ./.:6404:6397:-3.796e+00 MT 14785 . A . . END=14787 GT:DP:MIN_DP:TLOD ./.:7049:7018:-3.803e+00 ./.:6404:6397:-3.796e+00 -MT 14788 . T G,A, . base_quality;t_lod CONTQ=93.00;DP=13523 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7045,0,0,0:0.00,0.00,0.00:7045:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.586e+00,-2.586e+00,-2.586e+00 ./././.:6259,9,13,0:1.574e-04,2.607e-04,1.557e-04:6281:base_quality;t_lod:28,9,11,0:334,410,332,0:60,60,60,0:23,47,0:0.00,0.010,2.073e-03:0.157,4.804e-05,0.842:-3.326e+00,-3.082e+00,-3.330e+00 +MT 14788 . T G,A, . base_quality;t_lod CONTQ=93.00;DP=13523 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7045,0,0,0:0.00,0.00,0.00:7045:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.586e+00,-2.586e+00,-2.586e+00 ./././.:6259,9,13,0:1.574e-04,2.607e-04,1.557e-04:6281:base_quality;t_lod:28,9,11,0:334,410,332,0:60,60,60,0:23,47,0:-3.326e+00,-3.082e+00,-3.330e+00 MT 14789 . A . . . GT:DP:MIN_DP:TLOD ./.:7044:7031:-3.431e+00 ./.:6422:6422:-3.777e+00 -MT 14790 . A C, . base_quality;t_lod CONTQ=93.00;DP=13494 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7044,0,0:0.00,0.00:7044:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.431e+00,-3.431e+00 ././.:6288,7,0:1.668e-04,1.573e-04:6295:base_quality;t_lod:28,13,0:334,301,0:60,60,0:41,0:0.010,0.010,1.112e-03:3.566e-04,1.156e-04,1.000:-3.477e+00,-3.502e+00 +MT 14790 . A C, . base_quality;t_lod CONTQ=93.00;DP=13494 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7044,0,0:0.00,0.00:7044:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.431e+00,-3.431e+00 ././.:6288,7,0:1.668e-04,1.573e-04:6295:base_quality;t_lod:28,13,0:334,301,0:60,60,0:41,0:-3.477e+00,-3.502e+00 MT 14791 . C . . . GT:DP:MIN_DP:TLOD ./.:7019:7019:-3.588e+00 ./.:6389:6368:-3.723e+00 MT 14792 . C . . . GT:DP:MIN_DP:TLOD ./.:7091:7091:-2.923e+00 ./.:6389:6368:-3.723e+00 -MT 14793 . A C, . base_quality;t_lod CONTQ=93.00;DP=13510 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7057,0,0:0.00,0.00:7057:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.760e-01,-1.760e-01 ././.:6245,37,0:1.870e-04,1.584e-04:6282:base_quality;t_lod:28,7,0:335,324,0:60,60,0:33,0:0.010,0.010,5.890e-03:8.808e-07,0.986,0.014:-3.429e+00,-3.499e+00 +MT 14793 . A C, . base_quality;t_lod CONTQ=93.00;DP=13510 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7057,0,0:0.00,0.00:7057:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.760e-01,-1.760e-01 ././.:6245,37,0:1.870e-04,1.584e-04:6282:base_quality;t_lod:28,7,0:335,324,0:60,60,0:33,0:-3.429e+00,-3.499e+00 MT 14794 . C . . . GT:DP:MIN_DP:TLOD ./.:7078:7078:-3.788e+00 ./.:6394:6393:-3.803e+00 MT 14795 . T . . . GT:DP:MIN_DP:TLOD ./.:7059:7059:-3.262e+00 ./.:6394:6393:-3.803e+00 -MT 14796 . C A, . base_quality;t_lod CONTQ=93.00;DP=12764 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6142,4,0:1.707e-04,1.611e-04:6146:base_quality;t_lod:28,10,0:341,303,0:60,60,0:32,0:0.00,0.010,6.508e-04:1.283e-03,5.304e-05,0.999:-3.467e+00,-3.492e+00 ././.:6275,3,0:1.580e-04,1.577e-04:6278:base_quality;t_lod:28,11,0:335,327,0:60,60,0:15,0:0.010,0.010,4.779e-04:1.360e-04,1.052e-04,1.000:-3.500e+00,-3.501e+00 -MT 14797 . A C, . base_quality;t_lod CONTQ=93.00;DP=12617 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6170,0,0:0.00,0.00:6170:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.701e+00,-3.701e+00 ././.:6256,16,0:1.599e-04,1.580e-04:6272:base_quality;t_lod:29,7,0:335,351,0:60,60,0:15,0:0.010,0.010,2.551e-03:1.671e-04,5.525e-04,0.999:-3.495e+00,-3.500e+00 +MT 14796 . C A, . base_quality;t_lod CONTQ=93.00;DP=12764 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6142,4,0:1.707e-04,1.611e-04:6146:base_quality;t_lod:28,10,0:341,303,0:60,60,0:32,0:-3.467e+00,-3.492e+00 ././.:6275,3,0:1.580e-04,1.577e-04:6278:base_quality;t_lod:28,11,0:335,327,0:60,60,0:15,0:-3.500e+00,-3.501e+00 +MT 14797 . A C, . base_quality;t_lod CONTQ=93.00;DP=12617 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6170,0,0:0.00,0.00:6170:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.701e+00,-3.701e+00 ././.:6256,16,0:1.599e-04,1.580e-04:6272:base_quality;t_lod:29,7,0:335,351,0:60,60,0:15,0:-3.495e+00,-3.500e+00 MT 14798 . T . . . GT:DP:MIN_DP:TLOD ./.:6148:6148:-3.423e+00 ./.:6371:6371:-3.800e+00 -MT 14799 . T C, . base_quality;t_lod CONTQ=93.00;DP=12578 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6149,0,0:0.00,0.00:6149:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.762e+00,-3.762e+00 ././.:6229,22,0:2.313e-04,1.589e-04:6251:base_quality;t_lod:28,7,0:335,356,0:60,60,0:32,0:0.010,0.010,3.519e-03:2.406e-03,1.175e-04,0.997:-3.331e+00,-3.498e+00 +MT 14799 . T C, . base_quality;t_lod CONTQ=93.00;DP=12578 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6149,0,0:0.00,0.00:6149:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.762e+00,-3.762e+00 ././.:6229,22,0:2.313e-04,1.589e-04:6251:base_quality;t_lod:28,7,0:335,356,0:60,60,0:32,0:-3.331e+00,-3.498e+00 MT 14800 . C . . . GT:DP:MIN_DP:TLOD ./.:6175:6175:-3.412e+00 ./.:7090:7066:-3.795e+00 -MT 14801 . A C, . base_quality;t_lod CONTQ=93.00;DP=13396 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6149,22,0:1.779e-04,1.609e-04:6171:base_quality;t_lod:29,8,0:340,404,0:60,60,0:39,0:0.010,0.010,3.565e-03:3.729e-05,0.410,0.590:-3.449e+00,-3.492e+00 ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 +MT 14801 . A C, . base_quality;t_lod CONTQ=93.00;DP=13396 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6149,22,0:1.779e-04,1.609e-04:6171:base_quality;t_lod:29,8,0:340,404,0:60,60,0:39,0:-3.449e+00,-3.492e+00 ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 MT 14802 . T . . END=14803 GT:DP:MIN_DP:TLOD ./.:6176:6029:-3.761e+00 ./.:7090:7066:-3.795e+00 MT 14804 . G . . . GT:DP:MIN_DP:TLOD ./.:6176:6029:-3.761e+00 ./.:6883:6822:-3.472e+00 -MT 14805 . A C, . base_quality;t_lod CONTQ=93.00;DP=13155 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6025,102,0:2.218e-04,1.635e-04:6127:base_quality;t_lod:27,5,0:340,403,0:60,60,0:26,0:0.020,0.010,0.017:0.00,1.00,0.00:-3.365e+00,-3.486e+00 ./.:6883,0,0:0.00,0.00:6883:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.472e+00,-3.472e+00 -MT 14806 . C A, . base_quality;t_lod CONTQ=93.00;DP=13355 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6179,4,0:1.609e-04,1.604e-04:6183:base_quality;t_lod:28,13,0:341,366,0:60,60,0:35,0:0.010,0.010,6.469e-04:2.578e-04,8.132e-05,1.000:-3.492e+00,-3.494e+00 ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.845e+00,-3.845e+00 +MT 14805 . A C, . base_quality;t_lod CONTQ=93.00;DP=13155 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6025,102,0:2.218e-04,1.635e-04:6127:base_quality;t_lod:27,5,0:340,403,0:60,60,0:26,0:-3.365e+00,-3.486e+00 ./.:6883,0,0:0.00,0.00:6883:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.472e+00,-3.472e+00 +MT 14806 . C A, . base_quality;t_lod CONTQ=93.00;DP=13355 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6179,4,0:1.609e-04,1.604e-04:6183:base_quality;t_lod:28,13,0:341,366,0:60,60,0:35,0:-3.492e+00,-3.494e+00 ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.845e+00,-3.845e+00 MT 14807 . C . . END=14810 GT:DP:MIN_DP:TLOD ./.:6203:6169:-3.784e+00 ./.:7085:7021:-3.845e+00 -MT 14811 . C A, . base_quality;t_lod CONTQ=93.00;DP=13376 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6190,10,0:2.008e-04,1.600e-04:6200:base_quality;t_lod:28,13,0:341,294,0:60,60,0:43,0:0.010,0.010,1.613e-03:1.394e-03,8.178e-05,0.999:-3.390e+00,-3.495e+00 ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.845e+00,-3.845e+00 -MT 14812 . C A, . base_quality;t_lod CONTQ=93.00;DP=13373 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6198,7,0:3.031e-04,1.599e-04:6205:base_quality;t_lod:28,13,0:341,374,0:60,60,0:45,0:0.010,0.010,1.128e-03:2.134e-04,1.676e-04,1.000:-3.144e+00,-3.495e+00 ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.845e+00,-3.845e+00 -MT 14813 . A C, . base_quality;t_lod CONTQ=93.00;DP=13292 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6085,83,0:3.733e-04,1.622e-04:6168:base_quality;t_lod:28,5,0:342,347,0:60,60,0:16,0:0.010,0.010,0.013:3.976e-11,1.000,5.533e-07:-3.145e+00,-3.489e+00 ./.:6940,0,0:0.00,0.00:6940:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.237e+00,-2.237e+00 +MT 14811 . C A, . base_quality;t_lod CONTQ=93.00;DP=13376 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6190,10,0:2.008e-04,1.600e-04:6200:base_quality;t_lod:28,13,0:341,294,0:60,60,0:43,0:-3.390e+00,-3.495e+00 ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.845e+00,-3.845e+00 +MT 14812 . C A, . base_quality;t_lod CONTQ=93.00;DP=13373 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6198,7,0:3.031e-04,1.599e-04:6205:base_quality;t_lod:28,13,0:341,374,0:60,60,0:45,0:-3.144e+00,-3.495e+00 ./.:7085,0,0:0.00,0.00:7085:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.845e+00,-3.845e+00 +MT 14813 . A C, . base_quality;t_lod CONTQ=93.00;DP=13292 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6085,83,0:3.733e-04,1.622e-04:6168:base_quality;t_lod:28,5,0:342,347,0:60,60,0:16,0:-3.145e+00,-3.489e+00 ./.:6940,0,0:0.00,0.00:6940:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.237e+00,-2.237e+00 MT 14814 . C . . END=14816 GT:DP:MIN_DP:TLOD ./.:6221:6181:-3.790e+00 ./.:7110:7091:-3.803e+00 MT 14817 . C . . END=14818 GT:DP:MIN_DP:TLOD ./.:6221:6181:-3.790e+00 ./.:7097:7095:-3.228e+00 MT 14819 . T . . . GT:DP:MIN_DP:TLOD ./.:6221:6181:-3.790e+00 ./.:7050:7050:-2.113e+00 -MT 14820 . C A, . base_quality;t_lod CONTQ=93.00;DP=13489 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6219,3,0:1.596e-04,1.593e-04:6222:base_quality;t_lod:28,10,0:341,274,0:60,60,0:51,0:0.010,0.010,4.822e-04:1.580e-04,9.341e-05,1.000:-3.496e+00,-3.497e+00 ./.:7135,0,0:0.00,0.00:7135:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 +MT 14820 . C A, . base_quality;t_lod CONTQ=93.00;DP=13489 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6219,3,0:1.596e-04,1.593e-04:6222:base_quality;t_lod:28,10,0:341,274,0:60,60,0:51,0:-3.496e+00,-3.497e+00 ./.:7135,0,0:0.00,0.00:7135:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 MT 14821 . C . . . GT:DP:MIN_DP:TLOD ./.:6254:6254:-3.768e+00 ./.:7135:7111:-3.832e+00 -MT 14822 . A C, . base_quality;t_lod CONTQ=93.00;DP=13502 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6190,29,0:1.908e-04,1.597e-04:6219:base_quality;t_lod:28,8,0:341,392,0:60,60,0:17,0:0.010,0.010,4.663e-03:1.092e-04,6.894e-03,0.993:-3.421e+00,-3.496e+00 ./.:7135,0,0:0.00,0.00:7135:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 +MT 14822 . A C, . base_quality;t_lod CONTQ=93.00;DP=13502 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6190,29,0:1.908e-04,1.597e-04:6219:base_quality;t_lod:28,8,0:341,392,0:60,60,0:17,0:-3.421e+00,-3.496e+00 ./.:7135,0,0:0.00,0.00:7135:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 MT 14823 . A . . . GT:DP:MIN_DP:TLOD ./.:6206:6206:-3.467e+00 ./.:7036:7036:-3.033e+00 MT 14824 . C . . . GT:DP:MIN_DP:TLOD ./.:6206:6166:-3.776e+00 ./.:7048:7048:-3.821e+00 MT 14825 . A . . . GT:DP:MIN_DP:TLOD ./.:6206:6166:-3.776e+00 ./.:7007:7007:-3.153e+00 MT 14826 . T . . END=14828 GT:DP:MIN_DP:TLOD ./.:6206:6166:-3.776e+00 ./.:7062:6967:-3.807e+00 -MT 14829 . C A, . t_lod CONTQ=93.00;DP=13405 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6271,3,0:2.435e-04,1.579e-04:6274:t_lod:28,28,0:342,369,0:60,60,0:30,0:0.010,0.010,4.782e-04:1.567e-04,9.288e-05,1.000:-3.298e+00,-3.500e+00 ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 +MT 14829 . C A, . t_lod CONTQ=93.00;DP=13405 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6271,3,0:2.435e-04,1.579e-04:6274:t_lod:28,28,0:342,369,0:60,60,0:30,0:-3.298e+00,-3.500e+00 ./.:7062,0,0:0.00,0.00:7062:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 MT 14830 . C . . . GT:DP:MIN_DP:TLOD ./.:6276:6276:-3.668e+00 ./.:7062:6967:-3.807e+00 -MT 14831 . G A, . PASS CONTQ=93.00;DP=13311 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:20,6227,0:0.999,1.587e-04:6247:22,28,0:325,343,0:60,60,0:37,0:0.990,0.990,0.997:0.032,0.019,0.949:20236.29,-3.498e+00 ./.:6886,0,0:0.00,0.00:6886:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:8.27,8.27 +MT 14831 . G A, . PASS CONTQ=93.00;DP=13311 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:20,6227,0:0.999,1.587e-04:6247:22,28,0:325,343,0:60,60,0:37,0:20236.29,-3.498e+00 ./.:6886,0,0:0.00,0.00:6886:.,.,.:.,.,.:.,.,.:.,.:8.27,8.27 MT 14832 . C . . END=14834 GT:DP:MIN_DP:TLOD ./.:6212:6188:-3.796e+00 ./.:7059:7031:-3.790e+00 MT 14835 . G . . . GT:DP:MIN_DP:TLOD ./.:6212:6188:-3.796e+00 ./.:7047:7047:-3.437e+00 MT 14836 . A . . END=14845 GT:DP:MIN_DP:TLOD ./.:6212:6188:-3.796e+00 ./.:7053:6949:-3.842e+00 -MT 14846 . G T, . base_quality;t_lod CONTQ=93.00;DP=13332 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6184,14,0:2.103e-04,1.602e-04:6198:base_quality;t_lod:24,14,0:343,397,0:60,60,0:26,0:0.010,0.010,2.259e-03:0.045,6.174e-05,0.955:-3.363e+00,-3.494e+00 ./.:7053,0,0:0.00,0.00:7053:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.842e+00,-3.842e+00 +MT 14846 . G T, . base_quality;t_lod CONTQ=93.00;DP=13332 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6184,14,0:2.103e-04,1.602e-04:6198:base_quality;t_lod:24,14,0:343,397,0:60,60,0:26,0:-3.363e+00,-3.494e+00 ./.:7053,0,0:0.00,0.00:7053:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.842e+00,-3.842e+00 MT 14847 . G . . END=14850 GT:DP:MIN_DP:TLOD ./.:6196:6193:-3.774e+00 ./.:7053:6949:-3.842e+00 MT 14851 . A . . . GT:DP:MIN_DP:TLOD ./.:6196:6193:-3.774e+00 ./.:7026:7026:-3.249e+00 MT 14852 . C . . END=14853 GT:DP:MIN_DP:TLOD ./.:6196:6193:-3.774e+00 ./.:7094:7074:-3.833e+00 -MT 14854 . C T, . base_quality;t_lod CONTQ=93.00;DP=13465 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6227,2,0:1.773e-04,1.589e-04:6229:base_quality;t_lod:28,19,0:343,438,0:60,60,0:45,0:0.00,0.010,3.211e-04:3.104e-04,5.583e-05,1.000:-3.449e+00,-3.498e+00 ./.:7094,0,0:0.00,0.00:7094:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.833e+00,-3.833e+00 +MT 14854 . C T, . base_quality;t_lod CONTQ=93.00;DP=13465 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6227,2,0:1.773e-04,1.589e-04:6229:base_quality;t_lod:28,19,0:343,438,0:60,60,0:45,0:-3.449e+00,-3.498e+00 ./.:7094,0,0:0.00,0.00:7094:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.833e+00,-3.833e+00 MT 14855 . C . . END=14857 GT:DP:MIN_DP:TLOD ./.:6234:6127:-3.796e+00 ./.:7094:7074:-3.833e+00 MT 14858 . G . . . GT:DP:MIN_DP:TLOD ./.:6234:6127:-3.796e+00 ./.:7000:7000:-3.371e+00 MT 14859 . G . . END=14866 GT:DP:MIN_DP:TLOD ./.:6234:6127:-3.796e+00 ./.:7089:6855:-3.852e+00 MT 14867 . C . . . GT:DP:MIN_DP:TLOD ./.:6270:6270:-3.412e+00 ./.:7089:6855:-3.852e+00 MT 14868 . T . . END=14870 GT:DP:MIN_DP:TLOD ./.:6236:6203:-3.782e+00 ./.:7089:6855:-3.852e+00 -MT 14871 . T C, . base_quality;t_lod CONTQ=93.00;DP=12781 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.782e+00,-3.782e+00 ././.:6358,36,0:1.690e-04,1.555e-04:6394:base_quality;t_lod:28,5,0:336,376,0:60,60,0:24,0:0.010,0.010,5.630e-03:5.876e-05,0.270,0.730:-3.472e+00,-3.507e+00 -MT 14872 . C T, . PASS CONTQ=93.00;DP=12990 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:48,6187,0:0.998,1.599e-04:6235:PASS:8,28,0:325,344,0:60,60,0:37,0:0.990,0.990,0.992:0.018,0.026,0.956:18990.33,-3.495e+00 ././.:6407,17,0:2.086e-03,1.542e-04:6424:t_lod:28,27,0:336,299,0:60,60,0:18,0:0.010,0.010,2.646e-03:2.076e-04,3.732e-04,0.999:2.12,-3.511e+00 +MT 14871 . T C, . base_quality;t_lod CONTQ=93.00;DP=12781 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.782e+00,-3.782e+00 ././.:6358,36,0:1.690e-04,1.555e-04:6394:base_quality;t_lod:28,5,0:336,376,0:60,60,0:24,0:-3.472e+00,-3.507e+00 +MT 14872 . C T, . PASS CONTQ=93.00;DP=12990 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:48,6187,0:0.998,1.599e-04:6235:PASS:8,28,0:325,344,0:60,60,0:37,0:18990.33,-3.495e+00 ././.:6407,17,0:2.086e-03,1.542e-04:6424:t_lod:28,27,0:336,299,0:60,60,0:18,0:2.12,-3.511e+00 MT 14873 . C . . END=14875 GT:DP:MIN_DP:TLOD ./.:6259:6241:-3.793e+00 ./.:6541:6528:-3.813e+00 -MT 14876 . C A, . base_quality;t_lod CONTQ=93.00;DP=12937 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6245,3,0:1.589e-04,1.586e-04:6248:base_quality;t_lod:28,11,0:343,381,0:60,60,0:27,0:0.010,0.010,4.802e-04:7.145e-05,2.390e-04,1.000:-3.498e+00,-3.499e+00 ./.:6541,0,0:0.00,0.00:6541:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.813e+00,-3.813e+00 +MT 14876 . C A, . base_quality;t_lod CONTQ=93.00;DP=12937 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6245,3,0:1.589e-04,1.586e-04:6248:base_quality;t_lod:28,11,0:343,381,0:60,60,0:27,0:-3.498e+00,-3.499e+00 ./.:6541,0,0:0.00,0.00:6541:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.813e+00,-3.813e+00 MT 14877 . A . . . GT:DP:MIN_DP:TLOD ./.:6247:6203:-3.795e+00 ./.:6541:6528:-3.813e+00 -MT 14878 . A C, . base_quality;t_lod CONTQ=93.00;DP=12802 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6247,0,0:0.00,0.00:6247:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 ././.:6357,52,0:1.917e-04,1.554e-04:6409:base_quality;t_lod:28,8,0:337,341,0:60,60,0:30,0:0.010,0.010,8.114e-03:1.129e-04,0.034,0.966:-3.420e+00,-3.507e+00 -MT 14879 . A C, . base_quality;t_lod CONTQ=93.00;DP=12797 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6247,0,0:0.00,0.00:6247:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 ././.:6355,51,0:2.284e-04,1.555e-04:6406:base_quality;t_lod:28,8,0:337,361,0:60,60,0:20,0:0.010,0.010,7.961e-03:5.189e-08,0.999,7.806e-04:-3.353e+00,-3.508e+00 +MT 14878 . A C, . base_quality;t_lod CONTQ=93.00;DP=12802 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6247,0,0:0.00,0.00:6247:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 ././.:6357,52,0:1.917e-04,1.554e-04:6409:base_quality;t_lod:28,8,0:337,341,0:60,60,0:30,0:-3.420e+00,-3.507e+00 +MT 14879 . A C, . base_quality;t_lod CONTQ=93.00;DP=12797 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6247,0,0:0.00,0.00:6247:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 ././.:6355,51,0:2.284e-04,1.555e-04:6406:base_quality;t_lod:28,8,0:337,361,0:60,60,0:20,0:-3.353e+00,-3.508e+00 MT 14880 . T . . END=14892 GT:DP:MIN_DP:TLOD ./.:6247:6203:-3.795e+00 ./.:6572:6515:-3.817e+00 -MT 14893 . A C, . base_quality;t_lod CONTQ=93.00;DP=12866 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6173,23,0:2.193e-04,1.604e-04:6196:base_quality;t_lod:29,7,0:342,373,0:60,60,0:27,0:0.010,0.010,3.712e-03:2.532e-03,1.210e-04,0.997:-3.356e+00,-3.494e+00 ./.:6572,0,0:0.00,0.00:6572:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.817e+00,-3.817e+00 +MT 14893 . A C, . base_quality;t_lod CONTQ=93.00;DP=12866 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6173,23,0:2.193e-04,1.604e-04:6196:base_quality;t_lod:29,7,0:342,373,0:60,60,0:27,0:-3.356e+00,-3.494e+00 ./.:6572,0,0:0.00,0.00:6572:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.817e+00,-3.817e+00 MT 14894 . T . . END=14895 GT:DP:MIN_DP:TLOD ./.:6226:6215:-3.792e+00 ./.:6572:6515:-3.817e+00 MT 14896 . C . . . GT:DP:MIN_DP:TLOD ./.:6226:6215:-3.792e+00 ./.:6610:6610:-3.463e+00 -MT 14897 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12953 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6269,0,0:1.586e-04,1.586e-04:6269:base_quality;contamination;mapping_quality;t_lod:29,0,0:342,0,0:60,0,0:0,0:0.00,0.00,0.00:4.508e-05,5.681e-05,1.000:-3.499e+00,-3.499e+00 ./.:6626,0,0:0.00,0.00:6626:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.818e+00,-3.818e+00 +MT 14897 . C A, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=12953 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6269,0,0:1.586e-04,1.586e-04:6269:base_quality;contamination;mapping_quality;t_lod:29,0,0:342,0,0:60,0,0:0,0:-3.499e+00,-3.499e+00 ./.:6626,0,0:0.00,0.00:6626:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.818e+00,-3.818e+00 MT 14898 . T . . END=14901 GT:DP:MIN_DP:TLOD ./.:7115:7066:-3.819e+00 ./.:6626:6607:-3.818e+00 MT 14902 . C . . . GT:DP:MIN_DP:TLOD ./.:7115:7066:-3.819e+00 ./.:6650:6650:-3.388e+00 MT 14903 . A . . END=14904 GT:DP:MIN_DP:TLOD ./.:7115:7066:-3.819e+00 ./.:6604:6596:-3.769e+00 -MT 14905 . G A,C, . PASS CONTQ=93.00;DP=13743 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7055,0,0,0:0.00,0.00,0.00:7055:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.324e+00,-3.324e+00,-3.324e+00 ./././.:48,6415,39,0:0.995,2.634e-04,1.529e-04:6502:28,29,8,0:294,336,402,0:60,60,60,0:37,15,0:0.990,0.990,0.993:0.016,0.033,0.951:20506.80,-3.104e+00,-3.338e+00 +MT 14905 . G A,C, . PASS CONTQ=93.00;DP=13743 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7055,0,0,0:0.00,0.00,0.00:7055:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.324e+00,-3.324e+00,-3.324e+00 ./././.:48,6415,39,0:0.995,2.634e-04,1.529e-04:6502:28,29,8,0:294,336,402,0:60,60,60,0:37,15,0:20506.80,-3.104e+00,-3.338e+00 MT 14906 . C . . END=14908 GT:DP:MIN_DP:TLOD ./.:7099:7090:-3.792e+00 ./.:6590:6571:-3.818e+00 MT 14909 . T . . . GT:DP:MIN_DP:TLOD ./.:7081:7081:-3.450e+00 ./.:6590:6571:-3.818e+00 -MT 14910 . A C, . base_quality;t_lod CONTQ=93.00;DP=13714 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7039,0,0:0.00,0.00:7039:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.418e+00,-1.418e+00 ././.:6382,99,0:3.911e-04,1.545e-04:6481:base_quality;t_lod:28,7,0:336,345,0:60,60,0:21,0:0.020,0.010,0.015:9.854e-07,0.990,9.773e-03:-3.125e+00,-3.510e+00 +MT 14910 . A C, . base_quality;t_lod CONTQ=93.00;DP=13714 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7039,0,0:0.00,0.00:7039:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.418e+00,-1.418e+00 ././.:6382,99,0:3.911e-04,1.545e-04:6481:base_quality;t_lod:28,7,0:336,345,0:60,60,0:21,0:-3.125e+00,-3.510e+00 MT 14911 . C . . END=14913 GT:DP:MIN_DP:TLOD ./.:7066:7059:-3.745e+00 ./.:6573:6565:-3.818e+00 -MT 14914 . A C, . base_quality;t_lod CONTQ=93.00;DP=13704 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-1.662e+00,-1.662e+00 ././.:6371,73,0:1.749e-04,1.547e-04:6444:base_quality;t_lod:28,8,0:336,367,0:60,60,0:21,0:0.010,0.010,0.011:2.067e-04,3.075e-03,0.997:-3.459e+00,-3.509e+00 +MT 14914 . A C, . base_quality;t_lod CONTQ=93.00;DP=13704 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7065,0,0:0.00,0.00:7065:PASS:.,.,.:.,.,.:.,.,.:.,.:-1.662e+00,-1.662e+00 ././.:6371,73,0:1.749e-04,1.547e-04:6444:base_quality;t_lod:28,8,0:336,367,0:60,60,0:21,0:-3.459e+00,-3.509e+00 MT 14915 . C . . END=14917 GT:DP:MIN_DP:TLOD ./.:7077:7065:-3.776e+00 ./.:6529:6452:-3.819e+00 MT 14918 . G . . . GT:DP:MIN_DP:TLOD ./.:6959:6959:15.82 ./.:6529:6452:-3.819e+00 MT 14919 . A . . . GT:DP:MIN_DP:TLOD ./.:7029:7029:-3.377e+00 ./.:6529:6452:-3.819e+00 MT 14920 . C . . END=14923 GT:DP:MIN_DP:TLOD ./.:7050:6957:-3.783e+00 ./.:6529:6452:-3.819e+00 MT 14924 . T . . . GT:DP:MIN_DP:TLOD ./.:7059:7059:-2.572e+00 ./.:6529:6452:-3.819e+00 MT 14925 . C . . . GT:DP:MIN_DP:TLOD ./.:7093:7037:-3.846e+00 ./.:6529:6452:-3.819e+00 -MT 14926 . A C, . base_quality;t_lod CONTQ=93.00;DP=13623 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.846e+00,-3.846e+00 ././.:6499,6,0:1.544e-04,1.530e-04:6505:base_quality;t_lod:28,8,0:335,344,0:60,60,0:14,0:0.010,0.010,9.224e-04:1.404e-04,1.824e-04,1.000:-3.510e+00,-3.514e+00 +MT 14926 . A C, . base_quality;t_lod CONTQ=93.00;DP=13623 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.846e+00,-3.846e+00 ././.:6499,6,0:1.544e-04,1.530e-04:6505:base_quality;t_lod:28,8,0:335,344,0:60,60,0:14,0:-3.510e+00,-3.514e+00 MT 14927 . A . . END=14929 GT:DP:MIN_DP:TLOD ./.:7093:7037:-3.846e+00 ./.:6549:6518:-3.782e+00 -MT 14930 . G T, . t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.846e+00,-3.846e+00 ././.:6404,4,0:1.891e-04,1.549e-04:6408:t_lod:25,21,0:335,320,0:60,60,0:54,0:0.010,0.010,6.242e-04:2.500e-04,7.782e-05,1.000:-3.420e+00,-3.509e+00 +MT 14930 . G T, . t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7093,0,0:0.00,0.00:7093:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.846e+00,-3.846e+00 ././.:6404,4,0:1.891e-04,1.549e-04:6408:t_lod:25,21,0:335,320,0:60,60,0:54,0:-3.420e+00,-3.509e+00 MT 14931 . C . . END=14933 GT:DP:MIN_DP:TLOD ./.:7093:7037:-3.846e+00 ./.:6502:6489:-3.813e+00 MT 14934 . T . . . GT:DP:MIN_DP:TLOD ./.:7098:7098:-2.931e+00 ./.:6502:6489:-3.813e+00 MT 14935 . T . . END=14937 GT:DP:MIN_DP:TLOD ./.:7099:7094:-3.732e+00 ./.:6502:6489:-3.813e+00 -MT 14938 . A C, . base_quality;t_lod CONTQ=93.00;DP=13631 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7099,0,0:0.00,0.00:7099:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.732e+00,-3.732e+00 ././.:6343,22,0:1.638e-04,1.559e-04:6365:base_quality;t_lod:29,8,0:334,451,0:60,60,0:29,0:0.010,0.010,3.456e-03:7.452e-04,1.513e-04,0.999:-3.485e+00,-3.506e+00 +MT 14938 . A C, . base_quality;t_lod CONTQ=93.00;DP=13631 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7099,0,0:0.00,0.00:7099:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.732e+00,-3.732e+00 ././.:6343,22,0:1.638e-04,1.559e-04:6365:base_quality;t_lod:29,8,0:334,451,0:60,60,0:29,0:-3.485e+00,-3.506e+00 MT 14939 . T . . . GT:DP:MIN_DP:TLOD ./.:7086:7086:-3.296e+00 ./.:6498:6484:-3.802e+00 MT 14940 . C . . . GT:DP:MIN_DP:TLOD ./.:7117:6887:-3.817e+00 ./.:6498:6484:-3.802e+00 -MT 14941 . A C, . base_quality;t_lod CONTQ=93.00;DP=13422 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.817e+00,-3.817e+00 ././.:6341,20,0:2.277e-04,1.559e-04:6361:base_quality;t_lod:29,8,0:334,335,0:60,60,0:13,0:0.010,0.010,3.144e-03:3.067e-04,2.265e-04,0.999:-3.339e+00,-3.506e+00 +MT 14941 . A C, . base_quality;t_lod CONTQ=93.00;DP=13422 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7117,0,0:0.00,0.00:7117:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.817e+00,-3.817e+00 ././.:6341,20,0:2.277e-04,1.559e-04:6361:base_quality;t_lod:29,8,0:334,335,0:60,60,0:13,0:-3.339e+00,-3.506e+00 MT 14942 . A . . END=14948 GT:DP:MIN_DP:TLOD ./.:7117:6887:-3.817e+00 ./.:7123:6936:-3.815e+00 MT 14949 . A . . . GT:DP:MIN_DP:TLOD ./.:7117:6887:-3.817e+00 ./.:7166:7166:-3.487e+00 MT 14950 . C . . . GT:DP:MIN_DP:TLOD ./.:7133:7133:-3.131e+00 ./.:7118:7095:-3.844e+00 @@ -9035,16 +9031,16 @@ MT 15255 . T . . . GT:DP:MIN_DP:TLOD ./.:7128:6972:-3.838e+00 ./.:7158 MT 15256 . A . . END=15261 GT:DP:MIN_DP:TLOD ./.:7128:6972:-3.838e+00 ./.:7114:6983:-3.811e+00 MT 15262 . T . . . GT:DP:MIN_DP:TLOD ./.:7075:7061:-3.266e+00 ./.:7046:7046:-3.451e+00 MT 15263 . C . . . GT:DP:MIN_DP:TLOD ./.:7075:7061:-3.266e+00 ./.:7097:7097:-3.734e+00 -MT 15264 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=13408 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7100,0,0,0:0.00,0.00,0.00:7100:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.836e+00,-2.836e+00,-2.836e+00 ./././.:6126,8,3,0:1.750e-04,1.924e-04,1.616e-04:6137:base_quality;t_lod:28,14,14,0:338,371,301,0:60,60,60,0:29,38,0:0.00,0.010,4.895e-04:1.120e-03,4.661e-05,0.999:-3.280e+00,-3.235e+00,-3.314e+00 +MT 15264 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=13408 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7100,0,0,0:0.00,0.00,0.00:7100:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.836e+00,-2.836e+00,-2.836e+00 ./././.:6126,8,3,0:1.750e-04,1.924e-04,1.616e-04:6137:base_quality;t_lod:28,14,14,0:338,371,301,0:60,60,60,0:29,38,0:-3.280e+00,-3.235e+00,-3.314e+00 MT 15265 . C . . . GT:DP:MIN_DP:TLOD ./.:7168:7168:-3.658e+00 ./.:6272:6245:-3.795e+00 MT 15266 . A . . . GT:DP:MIN_DP:TLOD ./.:7078:7078:-1.986e+00 ./.:6272:6245:-3.795e+00 MT 15267 . C . . END=15271 GT:DP:MIN_DP:TLOD ./.:7156:7130:-3.743e+00 ./.:6272:6245:-3.795e+00 MT 15272 . A . . . GT:DP:MIN_DP:TLOD ./.:7134:7134:-3.484e+00 ./.:6272:6245:-3.795e+00 -MT 15273 . C A, . base_quality;t_lod CONTQ=93.00;DP=13444 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7155,0,0:0.00,0.00:7155:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.837e+00,-3.837e+00 ././.:6116,2,0:1.619e-04,1.617e-04:6118:base_quality;t_lod:28,11,0:338,604,0:60,60,0:46,0:0.010,0.010,3.269e-04:1.277e-04,9.775e-05,1.000:-3.490e+00,-3.490e+00 +MT 15273 . C A, . base_quality;t_lod CONTQ=93.00;DP=13444 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7155,0,0:0.00,0.00:7155:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.837e+00,-3.837e+00 ././.:6116,2,0:1.619e-04,1.617e-04:6118:base_quality;t_lod:28,11,0:338,604,0:60,60,0:46,0:-3.490e+00,-3.490e+00 MT 15274 . A . . . GT:DP:MIN_DP:TLOD ./.:7168:7168:-3.282e+00 ./.:6282:6282:-3.723e+00 -MT 15275 . C A, . base_quality;t_lod CONTQ=93.00;DP=13352 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7069,0,0:0.00,0.00:7069:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.842e+00,-3.842e+00 ././.:6106,4,0:1.934e-04,1.622e-04:6110:base_quality;t_lod:24,14,0:337,351,0:60,60,0:28,0:0.010,0.010,6.547e-04:1.515e-04,1.102e-04,1.000:-3.409e+00,-3.489e+00 +MT 15275 . C A, . base_quality;t_lod CONTQ=93.00;DP=13352 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7069,0,0:0.00,0.00:7069:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.842e+00,-3.842e+00 ././.:6106,4,0:1.934e-04,1.622e-04:6110:base_quality;t_lod:24,14,0:337,351,0:60,60,0:28,0:-3.409e+00,-3.489e+00 MT 15276 . G . . . GT:DP:MIN_DP:TLOD ./.:7069:7068:-3.842e+00 ./.:6243:6243:-3.790e+00 -MT 15277 . A C, . base_quality;t_lod CONTQ=93.00;DP=13317 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7048,0,0:0.00,0.00:7048:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.147e+00,-3.147e+00 ././.:6064,36,0:2.535e-04,1.631e-04:6100:base_quality;t_lod:28,8,0:337,380,0:60,60,0:19,0:0.010,0.010,5.902e-03:2.305e-04,8.486e-04,0.999:-3.292e+00,-3.486e+00 +MT 15277 . A C, . base_quality;t_lod CONTQ=93.00;DP=13317 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7048,0,0:0.00,0.00:7048:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.147e+00,-3.147e+00 ././.:6064,36,0:2.535e-04,1.631e-04:6100:base_quality;t_lod:28,8,0:337,380,0:60,60,0:19,0:-3.292e+00,-3.486e+00 MT 15278 . T . . . GT:DP:MIN_DP:TLOD ./.:7078:7078:-3.533e+00 ./.:6275:6252:-3.797e+00 MT 15279 . T . . . GT:DP:MIN_DP:TLOD ./.:7096:7096:-3.353e+00 ./.:6275:6252:-3.797e+00 MT 15280 . C . . . GT:DP:MIN_DP:TLOD ./.:7093:7093:-3.706e+00 ./.:6275:6252:-3.797e+00 @@ -9052,41 +9048,41 @@ MT 15281 . T . . END=15282 GT:DP:MIN_DP:TLOD ./.:7094:7088:-3.455e+00 MT 15283 . T . . END=15286 GT:DP:MIN_DP:TLOD ./.:7117:7074:-3.774e+00 ./.:6275:6252:-3.797e+00 MT 15287 . T . . END=15288 GT:DP:MIN_DP:TLOD ./.:7107:7106:-3.306e+00 ./.:6275:6252:-3.797e+00 MT 15289 . T . . . GT:DP:MIN_DP:TLOD ./.:7114:7114:-3.799e+00 ./.:6275:6252:-3.797e+00 -MT 15290 . C A, . base_quality;t_lod CONTQ=93.00;DP=12840 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6419,6,0:1.550e-04,1.543e-04:6425:base_quality;t_lod:28,11,0:344,241,0:60,60,0:31,0:0.010,0.010,9.339e-04:4.094e-04,8.719e-05,1.000:-3.509e+00,-3.511e+00 ./.:6275,0,0:0.00,0.00:6275:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.797e+00,-3.797e+00 -MT 15291 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=12836 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6311,67,9,0:1.784e-04,1.579e-04,1.560e-04:6387:base_quality;t_lod:28,7,12,0:345,332,315,0:60,60,60,0:27,56,0:0.010,0.010,0.011:1.023e-10,1.000,1.528e-06:-3.275e+00,-3.325e+00,-3.330e+00 ./.:6275,0,0,0:0.00,0.00,0.00:6275:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.797e+00,-3.797e+00,-3.797e+00 +MT 15290 . C A, . base_quality;t_lod CONTQ=93.00;DP=12840 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6419,6,0:1.550e-04,1.543e-04:6425:base_quality;t_lod:28,11,0:344,241,0:60,60,0:31,0:-3.509e+00,-3.511e+00 ./.:6275,0,0:0.00,0.00:6275:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.797e+00,-3.797e+00 +MT 15291 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=12836 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6311,67,9,0:1.784e-04,1.579e-04,1.560e-04:6387:base_quality;t_lod:28,7,12,0:345,332,315,0:60,60,60,0:27,56,0:-3.275e+00,-3.325e+00,-3.330e+00 ./.:6275,0,0,0:0.00,0.00,0.00:6275:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.797e+00,-3.797e+00,-3.797e+00 MT 15292 . C . . . GT:DP:MIN_DP:TLOD ./.:6450:6427:-3.794e+00 ./.:6275:6252:-3.797e+00 -MT 15293 . T C, . base_quality;t_lod CONTQ=93.00;DP=12743 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6450,0,0:0.00,0.00:6450:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.794e+00,-3.794e+00 ././.:6111,18,0:5.146e-04,1.616e-04:6129:base_quality;t_lod:29,10,0:337,361,0:60,60,0:21,0:0.010,0.010,2.937e-03:9.617e-04,1.292e-04,0.999:-2.799e+00,-3.490e+00 +MT 15293 . T C, . base_quality;t_lod CONTQ=93.00;DP=12743 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6450,0,0:0.00,0.00:6450:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.794e+00,-3.794e+00 ././.:6111,18,0:5.146e-04,1.616e-04:6129:base_quality;t_lod:29,10,0:337,361,0:60,60,0:21,0:-2.799e+00,-3.490e+00 MT 15294 . T . . END=15295 GT:DP:MIN_DP:TLOD ./.:6450:6427:-3.794e+00 ./.:6278:6258:-3.795e+00 -MT 15296 . A C, . base_quality;t_lod CONTQ=93.00;DP=12847 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6333,62,0:2.454e-04,1.556e-04:6395:base_quality;t_lod:28,8,0:344,382,0:60,60,0:21,0:0.010,0.010,9.695e-03:2.642e-08,1.000,3.591e-04:-3.310e+00,-3.507e+00 ./.:6278,0,0:0.00,0.00:6278:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.795e+00,-3.795e+00 +MT 15296 . A C, . base_quality;t_lod CONTQ=93.00;DP=12847 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6333,62,0:2.454e-04,1.556e-04:6395:base_quality;t_lod:28,8,0:344,382,0:60,60,0:21,0:-3.310e+00,-3.507e+00 ./.:6278,0,0:0.00,0.00:6278:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.795e+00,-3.795e+00 MT 15297 . T . . END=15300 GT:DP:MIN_DP:TLOD ./.:6480:6450:-3.809e+00 ./.:6278:6258:-3.795e+00 -MT 15301 . G A, . PASS CONTQ=93.00;DP=12738 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6435,0,0:0.00,0.00:6435:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.709e+00,-2.709e+00 ././.:32,6030,0:0.996,1.631e-04:6062:28,28,0:324,337,0:60,60,0:36,0:0.990,0.990,0.995:0.083,0.011,0.906:18678.39,-3.486e+00 +MT 15301 . G A, . PASS CONTQ=93.00;DP=12738 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6435,0,0:0.00,0.00:6435:.,.,.:.,.,.:.,.,.:.,.:-2.709e+00,-2.709e+00 ././.:32,6030,0:0.996,1.631e-04:6062:28,28,0:324,337,0:60,60,0:36,0:18678.39,-3.486e+00 MT 15302 . C . . . GT:DP:MIN_DP:TLOD ./.:6473:6473:-3.810e+00 ./.:6272:6262:-3.793e+00 -MT 15303 . C A, . base_quality;t_lod CONTQ=93.00;DP=12858 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6422,5,0:1.895e-04,1.541e-04:6427:base_quality;t_lod:28,11,0:344,350,0:60,60,0:32,0:0.010,0.00,7.780e-04:5.078e-05,2.358e-03,0.998:-3.415e+00,-3.511e+00 ./.:6272,0,0:0.00,0.00:6272:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.793e+00,-3.793e+00 -MT 15304 . C A, . base_quality;t_lod CONTQ=93.00;DP=12783 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6480,0,0:0.00,0.00:6480:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 ././.:6141,4,0:1.876e-04,1.611e-04:6145:base_quality;t_lod:28,19,0:336,379,0:60,60,0:46,0:0.010,0.010,6.509e-04:1.350e-04,1.201e-04,1.000:-3.427e+00,-3.492e+00 -MT 15305 . T G, . base_quality;t_lod CONTQ=93.00;DP=12783 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6480,0,0:0.00,0.00:6480:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 ././.:6115,14,0:1.678e-04,1.617e-04:6129:base_quality;t_lod:29,7,0:336,384,0:60,60,0:18,0:0.010,0.010,2.284e-03:1.084e-04,1.362e-03,0.999:-3.475e+00,-3.490e+00 +MT 15303 . C A, . base_quality;t_lod CONTQ=93.00;DP=12858 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6422,5,0:1.895e-04,1.541e-04:6427:base_quality;t_lod:28,11,0:344,350,0:60,60,0:32,0:-3.415e+00,-3.511e+00 ./.:6272,0,0:0.00,0.00:6272:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.793e+00,-3.793e+00 +MT 15304 . C A, . base_quality;t_lod CONTQ=93.00;DP=12783 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6480,0,0:0.00,0.00:6480:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 ././.:6141,4,0:1.876e-04,1.611e-04:6145:base_quality;t_lod:28,19,0:336,379,0:60,60,0:46,0:-3.427e+00,-3.492e+00 +MT 15305 . T G, . base_quality;t_lod CONTQ=93.00;DP=12783 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6480,0,0:0.00,0.00:6480:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 ././.:6115,14,0:1.678e-04,1.617e-04:6129:base_quality;t_lod:29,7,0:336,384,0:60,60,0:18,0:-3.475e+00,-3.490e+00 MT 15306 . T . . END=15312 GT:DP:MIN_DP:TLOD ./.:6480:6471:-3.807e+00 ./.:6234:6215:-3.793e+00 -MT 15313 . T TTCAGCCCTA, . t_lod CONTQ=93.00;DP=12772 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6480,0,0:0.00,0.00:6480:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 ././.:6075,7,0:1.783e-04,1.619e-04:6082:t_lod:29,28,0:336,349,0:60,60,0:0,0:0.00,0.010,1.151e-03:0.015,5.073e-05,0.985:-3.448e+00,-3.490e+00 -MT 15314 . G T, . base_quality;t_lod CONTQ=93.00;DP=12807 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6402,10,0:1.622e-04,1.544e-04:6412:base_quality;t_lod:28,12,0:345,318,0:60,60,0:23,0:0.010,0.010,1.560e-03:0.012,5.583e-05,0.988:-3.489e+00,-3.510e+00 ./.:6214,0,0:0.00,0.00:6214:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.763e+00,-3.763e+00 +MT 15313 . T TTCAGCCCTA, . t_lod CONTQ=93.00;DP=12772 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6480,0,0:0.00,0.00:6480:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 ././.:6075,7,0:1.783e-04,1.619e-04:6082:t_lod:29,28,0:336,349,0:60,60,0:0,0:-3.448e+00,-3.490e+00 +MT 15314 . G T, . base_quality;t_lod CONTQ=93.00;DP=12807 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6402,10,0:1.622e-04,1.544e-04:6412:base_quality;t_lod:28,12,0:345,318,0:60,60,0:23,0:-3.489e+00,-3.510e+00 ./.:6214,0,0:0.00,0.00:6214:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.763e+00,-3.763e+00 MT 15315 . C . . END=15318 GT:DP:MIN_DP:TLOD ./.:6511:6478:-3.809e+00 ./.:6214:6185:-3.763e+00 -MT 15319 . C A, . base_quality;t_lod CONTQ=93.00;DP=12790 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6511,0,0:0.00,0.00:6511:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.809e+00,-3.809e+00 ././.:6224,2,0:1.602e-04,1.596e-04:6226:base_quality;t_lod:28,17,0:336,397,0:60,60,0:10,0:0.010,0.010,3.212e-04:1.084e-04,1.107e-04,1.000:-3.494e+00,-3.496e+00 +MT 15319 . C A, . base_quality;t_lod CONTQ=93.00;DP=12790 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6511,0,0:0.00,0.00:6511:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.809e+00,-3.809e+00 ././.:6224,2,0:1.602e-04,1.596e-04:6226:base_quality;t_lod:28,17,0:336,397,0:60,60,0:10,0:-3.494e+00,-3.496e+00 MT 15320 . C . . END=15325 GT:DP:MIN_DP:TLOD ./.:6511:6478:-3.809e+00 ./.:6254:6213:-3.794e+00 -MT 15326 . A G, . PASS CONTQ=93.00;DP=12986 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:4,6480,0:1.00,1.528e-04:6484:8,28,0:467,345,0:60,60,0:36,0:0.990,0.990,0.999:0.026,0.026,0.948:20614.51,-3.515e+00 ././.:0,6240,0:1.00,1.595e-04:6240:0,28,0:0,337,0:0,60,0:36,0:0.990,0.990,1.00:0.027,0.027,0.946:26024.92,-3.496e+00 +MT 15326 . A G, . PASS CONTQ=93.00;DP=12986 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:4,6480,0:1.00,1.528e-04:6484:8,28,0:467,345,0:60,60,0:36,0:20614.51,-3.515e+00 ././.:0,6240,0:1.00,1.595e-04:6240:0,28,0:0,337,0:0,60,0:36,0:26024.92,-3.496e+00 MT 15327 . C . . . GT:DP:MIN_DP:TLOD ./.:6493:6493:-3.678e+00 ./.:6250:6250:-3.713e+00 -MT 15328 . A ACTCCAC,C, . base_quality;t_lod CONTQ=93.00;DP=12955 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6359,0,90,0:1.551e-04,2.777e-04,1.551e-04:6449:base_quality;t_lod:28,0,6,0:345,0,359,0:60,0,60,0:0,15,0:0.010,0.010,0.014:1.253e-04,0.091,0.909:-3.508e+00,-3.283e+00,-3.508e+00 ././.:6232,8,0,0:1.607e-04,1.595e-04,1.595e-04:6240:t_lod:28,20,0,0:337,291,0,0:60,60,0,0:4,0,0:0.010,0.010,1.282e-03:6.157e-05,3.804e-03,0.996:-3.493e+00,-3.496e+00,-3.496e+00 +MT 15328 . A ACTCCAC,C, . base_quality;t_lod CONTQ=93.00;DP=12955 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6359,0,90,0:1.551e-04,2.777e-04,1.551e-04:6449:base_quality;t_lod:28,0,6,0:345,0,359,0:60,0,60,0:0,15,0:-3.508e+00,-3.283e+00,-3.508e+00 ././.:6232,8,0,0:1.607e-04,1.595e-04,1.595e-04:6240:t_lod:28,20,0,0:337,291,0,0:60,60,0,0:4,0,0:-3.493e+00,-3.496e+00,-3.496e+00 MT 15329 . C . . END=15331 GT:DP:MIN_DP:TLOD ./.:6495:6494:-3.813e+00 ./.:6248:6236:-3.796e+00 -MT 15332 . C A, . base_quality;t_lod CONTQ=93.00;DP=12924 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6460,7,0:2.662e-04,1.536e-04:6467:base_quality;t_lod:28,13,0:345,366,0:60,60,0:25,0:0.010,0.010,1.082e-03:5.480e-04,8.942e-05,0.999:-3.263e+00,-3.513e+00 ././.:6133,10,0:1.626e-04,1.613e-04:6143:base_quality;t_lod:28,12,0:337,429,0:60,60,0:23,0:0.010,0.010,1.628e-03:6.748e-04,9.849e-05,0.999:-3.488e+00,-3.491e+00 -MT 15333 . A C, . base_quality;t_lod CONTQ=93.00;DP=12758 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6276,122,0:5.111e-04,1.569e-04:6398:base_quality;t_lod:28,5,0:345,367,0:60,60,0:19,0:0.020,0.010,0.019:8.418e-09,1.000,8.700e-05:-2.876e+00,-3.503e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 +MT 15332 . C A, . base_quality;t_lod CONTQ=93.00;DP=12924 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6460,7,0:2.662e-04,1.536e-04:6467:base_quality;t_lod:28,13,0:345,366,0:60,60,0:25,0:-3.263e+00,-3.513e+00 ././.:6133,10,0:1.626e-04,1.613e-04:6143:base_quality;t_lod:28,12,0:337,429,0:60,60,0:23,0:-3.488e+00,-3.491e+00 +MT 15333 . A C, . base_quality;t_lod CONTQ=93.00;DP=12758 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6276,122,0:5.111e-04,1.569e-04:6398:base_quality;t_lod:28,5,0:345,367,0:60,60,0:19,0:-2.876e+00,-3.503e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 MT 15334 . C . . END=15339 GT:DP:MIN_DP:TLOD ./.:6502:6446:-3.805e+00 ./.:6236:6163:-3.796e+00 -MT 15340 . A C, . base_quality;t_lod CONTQ=93.00;DP=12724 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6459,5,0:1.594e-04,1.539e-04:6464:base_quality;t_lod:28,18,0:345,421,0:60,60,0:19,0:0.00,0.010,7.735e-04:2.635e-03,4.924e-05,0.997:-3.497e+00,-3.512e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 +MT 15340 . A C, . base_quality;t_lod CONTQ=93.00;DP=12724 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6459,5,0:1.594e-04,1.539e-04:6464:base_quality;t_lod:28,18,0:345,421,0:60,60,0:19,0:-3.497e+00,-3.512e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 MT 15341 . T . . END=15351 GT:DP:MIN_DP:TLOD ./.:6385:6275:-3.805e+00 ./.:6236:6163:-3.796e+00 -MT 15352 . A C, . base_quality;t_lod CONTQ=93.00;DP=12643 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6279,30,0:1.681e-04,1.574e-04:6309:base_quality;t_lod:28,6,0:345,368,0:60,60,0:32,0:0.010,0.010,4.755e-03:0.106,7.282e-05,0.894:-3.474e+00,-3.502e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 +MT 15352 . A C, . base_quality;t_lod CONTQ=93.00;DP=12643 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6279,30,0:1.681e-04,1.574e-04:6309:base_quality;t_lod:28,6,0:345,368,0:60,60,0:32,0:-3.474e+00,-3.502e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 MT 15353 . A . . END=15354 GT:DP:MIN_DP:TLOD ./.:6334:6317:-3.785e+00 ./.:6236:6163:-3.796e+00 -MT 15355 . G A, . t_lod CONTQ=93.00;DP=12647 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6302,5,0:2.942e-04,1.573e-04:6307:t_lod:25,25,0:345,374,0:60,60,0:30,0:0.010,0.010,7.928e-04:1.023e-04,2.119e-04,1.000:-3.198e+00,-3.502e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.796e+00,-3.796e+00 +MT 15355 . G A, . t_lod CONTQ=93.00;DP=12647 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6302,5,0:2.942e-04,1.573e-04:6307:t_lod:25,25,0:345,374,0:60,60,0:30,0:-3.198e+00,-3.502e+00 ./.:6236,0,0:0.00,0.00:6236:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.796e+00,-3.796e+00 MT 15356 . G . . END=15358 GT:DP:MIN_DP:TLOD ./.:7025:7020:-3.459e+00 ./.:6236:6163:-3.796e+00 MT 15359 . T . . END=15360 GT:DP:MIN_DP:TLOD ./.:7047:7028:-3.736e+00 ./.:6236:6163:-3.796e+00 MT 15361 . A . . . GT:DP:MIN_DP:TLOD ./.:7097:7097:-3.366e+00 ./.:6225:6225:-3.349e+00 -MT 15362 . A C, . base_quality;t_lod CONTQ=93.00;DP=13320 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7074,0,0:0.00,0.00:7074:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.602e+00,-3.602e+00 ././.:6054,28,0:2.732e-04,1.634e-04:6082:base_quality;t_lod:28,7,0:335,397,0:60,60,0:37,0:0.010,0.010,4.604e-03:2.238e-03,1.422e-04,0.998:-3.260e+00,-3.486e+00 -MT 15363 . A C, . base_quality;t_lod CONTQ=93.00;DP=13326 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7077,0,0:0.00,0.00:7077:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.309e+00,-2.309e+00 ././.:6051,29,0:1.671e-04,1.634e-04:6080:base_quality;t_lod:28,6,0:335,393,0:60,60,0:25,0:0.010,0.010,4.770e-03:3.041e-04,4.120e-04,0.999:-3.476e+00,-3.486e+00 +MT 15362 . A C, . base_quality;t_lod CONTQ=93.00;DP=13320 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7074,0,0:0.00,0.00:7074:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.602e+00,-3.602e+00 ././.:6054,28,0:2.732e-04,1.634e-04:6082:base_quality;t_lod:28,7,0:335,397,0:60,60,0:37,0:-3.260e+00,-3.486e+00 +MT 15363 . A C, . base_quality;t_lod CONTQ=93.00;DP=13326 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7077,0,0:0.00,0.00:7077:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.309e+00,-2.309e+00 ././.:6051,29,0:1.671e-04,1.634e-04:6080:base_quality;t_lod:28,6,0:335,393,0:60,60,0:25,0:-3.476e+00,-3.486e+00 MT 15364 . C . . . GT:DP:MIN_DP:TLOD ./.:7059:7059:-3.753e+00 ./.:7090:7090:-3.408e+00 MT 15365 . A . . . GT:DP:MIN_DP:TLOD ./.:7082:7082:-1.746e+00 ./.:7058:6992:-2.449e+00 MT 15366 . A . . . GT:DP:MIN_DP:TLOD ./.:6950:6950:1.20 ./.:7058:6992:-2.449e+00 @@ -9421,54 +9417,54 @@ MT 15975 . C . . END=15976 GT:DP:MIN_DP:TLOD ./.:7081:7060:-3.832e+00 MT 15977 . C . . . GT:DP:MIN_DP:TLOD ./.:7081:7060:-3.832e+00 ./.:7089:7089:-3.376e+00 MT 15978 . C . . . GT:DP:MIN_DP:TLOD ./.:7130:7130:-3.335e+00 ./.:7063:6954:-3.807e+00 MT 15979 . A . . END=15985 GT:DP:MIN_DP:TLOD ./.:7118:7089:-3.806e+00 ./.:7063:6954:-3.807e+00 -MT 15986 . G T, . base_quality;t_lod CONTQ=93.00;DP=13529 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6386,6,0:1.685e-04,1.552e-04:6392:base_quality;t_lod:28,12,0:337,383,0:60,60,0:34,0:0.010,0.010,9.387e-04:1.317e-03,6.178e-05,0.999:-3.473e+00,-3.508e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 -MT 15987 . C A, . base_quality;t_lod CONTQ=93.00;DP=13535 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6397,3,0:1.583e-04,1.548e-04:6400:base_quality;t_lod:28,14,0:337,427,0:60,60,0:39,0:0.010,0.010,4.688e-04:8.796e-05,1.622e-04,1.000:-3.500e+00,-3.509e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 -MT 15988 . A T, . base_quality;t_lod CONTQ=93.00;DP=13537 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6372,4,0:1.556e-04,1.552e-04:6376:base_quality;t_lod:28,13,0:337,325,0:60,60,0:43,0:0.010,0.00,6.274e-04:5.241e-05,1.128e-03,0.999:-3.507e+00,-3.508e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.807e+00,-3.807e+00 +MT 15986 . G T, . base_quality;t_lod CONTQ=93.00;DP=13529 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6386,6,0:1.685e-04,1.552e-04:6392:base_quality;t_lod:28,12,0:337,383,0:60,60,0:34,0:-3.473e+00,-3.508e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 +MT 15987 . C A, . base_quality;t_lod CONTQ=93.00;DP=13535 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6397,3,0:1.583e-04,1.548e-04:6400:base_quality;t_lod:28,14,0:337,427,0:60,60,0:39,0:-3.500e+00,-3.509e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 +MT 15988 . A T, . base_quality;t_lod CONTQ=93.00;DP=13537 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6372,4,0:1.556e-04,1.552e-04:6376:base_quality;t_lod:28,13,0:337,325,0:60,60,0:43,0:-3.507e+00,-3.508e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.807e+00,-3.807e+00 MT 15989 . C . . . GT:DP:MIN_DP:TLOD ./.:6437:6437:-3.727e+00 ./.:7063:6954:-3.807e+00 -MT 15990 . C A, . base_quality;t_lod CONTQ=93.00;DP=13621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6391,11,0:1.560e-04,1.548e-04:6402:base_quality;t_lod:28,13,0:337,305,0:60,60,0:18,0:0.010,0.010,1.718e-03:7.512e-05,2.222e-03,0.998:-3.506e+00,-3.509e+00 ./.:7054,0,0:0.00,0.00:7054:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.452e+00,-3.452e+00 +MT 15990 . C A, . base_quality;t_lod CONTQ=93.00;DP=13621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6391,11,0:1.560e-04,1.548e-04:6402:base_quality;t_lod:28,13,0:337,305,0:60,60,0:18,0:-3.506e+00,-3.509e+00 ./.:7054,0,0:0.00,0.00:7054:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.452e+00,-3.452e+00 MT 15991 . C . . . GT:DP:MIN_DP:TLOD ./.:6442:6442:-3.798e+00 ./.:7054:7031:-3.452e+00 -MT 15992 . A G, . base_quality;t_lod CONTQ=93.00;DP=13673 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6500,2,0:2.105e-04,1.529e-04:6502:base_quality;t_lod:29,17,0:337,189,0:60,60,0:21,0:0.010,0.00,3.076e-04:5.155e-05,3.235e-04,1.000:-3.348e+00,-3.515e+00 ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.789e+00,-3.789e+00 -MT 15993 . A C, . base_quality;t_lod CONTQ=93.00;DP=13620 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6390,22,0:2.039e-04,1.548e-04:6412:base_quality;t_lod:28,8,0:336,439,0:60,60,0:23,0:0.010,0.010,3.431e-03:1.511e-04,7.203e-04,0.999:-3.395e+00,-3.509e+00 ./.:7041,0,0:0.00,0.00:7041:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.398e+00,-3.398e+00 +MT 15992 . A G, . base_quality;t_lod CONTQ=93.00;DP=13673 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6500,2,0:2.105e-04,1.529e-04:6502:base_quality;t_lod:29,17,0:337,189,0:60,60,0:21,0:-3.348e+00,-3.515e+00 ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.789e+00,-3.789e+00 +MT 15993 . A C, . base_quality;t_lod CONTQ=93.00;DP=13620 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6390,22,0:2.039e-04,1.548e-04:6412:base_quality;t_lod:28,8,0:336,439,0:60,60,0:23,0:-3.395e+00,-3.509e+00 ./.:7041,0,0:0.00,0.00:7041:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.398e+00,-3.398e+00 MT 15994 . A . . . GT:DP:MIN_DP:TLOD ./.:6491:6443:-3.803e+00 ./.:7041:7026:-3.398e+00 MT 15995 . G . . . GT:DP:MIN_DP:TLOD ./.:6491:6443:-3.803e+00 ./.:6967:6967:-3.505e+00 MT 15996 . C . . END=15997 GT:DP:MIN_DP:TLOD ./.:6491:6443:-3.803e+00 ./.:7012:6991:-3.430e+00 MT 15998 . A . . END=16001 GT:DP:MIN_DP:TLOD ./.:6491:6443:-3.803e+00 ./.:7026:7007:-3.827e+00 -MT 16002 . T A, . base_quality;t_lod CONTQ=93.00;DP=13621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6411,5,0:1.547e-04,1.541e-04:6416:base_quality;t_lod:29,10,0:336,375,0:60,60,0:20,0:0.00,0.010,7.793e-04:3.410e-03,4.728e-05,0.997:-3.510e+00,-3.511e+00 ./.:7026,0,0:0.00,0.00:7026:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.827e+00,-3.827e+00 -MT 16003 . T A, . base_quality;t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6418,6,0:1.548e-04,1.541e-04:6424:base_quality;t_lod:28,11,0:336,285,0:60,60,0:31,0:0.010,0.010,9.340e-04:1.135e-03,6.373e-05,0.999:-3.509e+00,-3.511e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.404e+00,-3.404e+00 +MT 16002 . T A, . base_quality;t_lod CONTQ=93.00;DP=13621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6411,5,0:1.547e-04,1.541e-04:6416:base_quality;t_lod:29,10,0:336,375,0:60,60,0:20,0:-3.510e+00,-3.511e+00 ./.:7026,0,0:0.00,0.00:7026:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.827e+00,-3.827e+00 +MT 16003 . T A, . base_quality;t_lod CONTQ=93.00;DP=13615 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6418,6,0:1.548e-04,1.541e-04:6424:base_quality;t_lod:28,11,0:336,285,0:60,60,0:31,0:-3.509e+00,-3.511e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.404e+00,-3.404e+00 MT 16004 . C . . END=16005 GT:DP:MIN_DP:TLOD ./.:6499:6489:-3.808e+00 ./.:7007:6993:-3.599e+00 -MT 16006 . A C, . base_quality;t_lod CONTQ=93.00;DP=13686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6441,26,0:2.132e-04,1.536e-04:6467:base_quality;t_lod:29,8,0:336,386,0:60,60,0:38,0:0.010,0.010,4.020e-03:8.856e-05,0.020,0.980:-3.378e+00,-3.513e+00 ./.:7050,0,0:0.00,0.00:7050:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.839e+00,-2.839e+00 +MT 16006 . A C, . base_quality;t_lod CONTQ=93.00;DP=13686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6441,26,0:2.132e-04,1.536e-04:6467:base_quality;t_lod:29,8,0:336,386,0:60,60,0:38,0:-3.378e+00,-3.513e+00 ./.:7050,0,0:0.00,0.00:7050:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.839e+00,-2.839e+00 MT 16007 . A . . END=16008 GT:DP:MIN_DP:TLOD ./.:6506:6504:-3.795e+00 ./.:7008:7007:-3.744e+00 -MT 16009 . T G, . base_quality;t_lod CONTQ=93.00;DP=13655 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6479,20,0:1.553e-04,1.529e-04:6499:base_quality;t_lod:28,8,0:336,423,0:60,60,0:31,0:0.010,0.010,3.077e-03:0.106,5.679e-05,0.894:-3.508e+00,-3.515e+00 ./.:6991,0,0:0.00,0.00:6991:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.364e+00,-3.364e+00 +MT 16009 . T G, . base_quality;t_lod CONTQ=93.00;DP=13655 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6479,20,0:1.553e-04,1.529e-04:6499:base_quality;t_lod:28,8,0:336,423,0:60,60,0:31,0:-3.508e+00,-3.515e+00 ./.:6991,0,0:0.00,0.00:6991:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.364e+00,-3.364e+00 MT 16010 . T . . END=16011 GT:DP:MIN_DP:TLOD ./.:6528:6520:-3.778e+00 ./.:7024:7017:-3.751e+00 -MT 16012 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6472,36,7,0:2.406e-04,1.586e-04,1.527e-04:6515:base_quality;t_lod:28,7,11,0:336,401,346,0:60,60,60,0:31,39,0:0.010,0.010,5.532e-03:1.267e-04,3.918e-03,0.996:-3.140e+00,-3.323e+00,-3.339e+00 ./.:7024,0,0,0:0.00,0.00,0.00:7024:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.325e+00,-3.325e+00,-3.325e+00 -MT 16013 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13651 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6477,27,5,0:1.849e-04,2.656e-04,1.509e-04:6509:base_quality;t_lod:28,8,11,0:336,352,355,0:60,60,60,0:39,5,0:0.010,0.00,7.714e-04:4.902e-05,2.646e-03,0.997:-3.259e+00,-3.059e+00,-3.344e+00 ./.:7000,0,0,0:0.00,0.00,0.00:7000:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.790e+00,-3.790e+00,-3.790e+00 -MT 16014 . C A, . base_quality;t_lod CONTQ=93.00;DP=13656 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6528,3,0:1.522e-04,1.519e-04:6531:base_quality;t_lod:28,12,0:336,462,0:60,60,0:18,0:0.010,0.010,4.593e-04:1.880e-04,7.744e-05,1.000:-3.517e+00,-3.518e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.790e+00,-3.790e+00 +MT 16012 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13701 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6472,36,7,0:2.406e-04,1.586e-04,1.527e-04:6515:base_quality;t_lod:28,7,11,0:336,401,346,0:60,60,60,0:31,39,0:-3.140e+00,-3.323e+00,-3.339e+00 ./.:7024,0,0,0:0.00,0.00,0.00:7024:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.325e+00,-3.325e+00,-3.325e+00 +MT 16013 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=13651 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6477,27,5,0:1.849e-04,2.656e-04,1.509e-04:6509:base_quality;t_lod:28,8,11,0:336,352,355,0:60,60,60,0:39,5,0:-3.259e+00,-3.059e+00,-3.344e+00 ./.:7000,0,0,0:0.00,0.00,0.00:7000:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.790e+00,-3.790e+00,-3.790e+00 +MT 16014 . C A, . base_quality;t_lod CONTQ=93.00;DP=13656 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6528,3,0:1.522e-04,1.519e-04:6531:base_quality;t_lod:28,12,0:336,462,0:60,60,0:18,0:-3.517e+00,-3.518e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.790e+00,-3.790e+00 MT 16015 . T . . END=16016 GT:DP:MIN_DP:TLOD ./.:6521:6519:-3.810e+00 ./.:7000:6964:-3.790e+00 MT 16017 . T . . . GT:DP:MIN_DP:TLOD ./.:6524:6524:-3.476e+00 ./.:7000:6964:-3.790e+00 MT 16018 . T . . END=16019 GT:DP:MIN_DP:TLOD ./.:6532:6521:-3.734e+00 ./.:7000:6964:-3.790e+00 -MT 16020 . T A, . base_quality;t_lod CONTQ=93.00;DP=13693 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6531,8,0:1.690e-04,1.514e-04:6539:base_quality;t_lod:28,7,0:336,328,0:60,60,0:12,0:0.010,0.010,1.223e-03:9.086e-04,7.974e-05,0.999:-3.471e+00,-3.519e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.790e+00,-3.790e+00 -MT 16021 . C A, . base_quality;t_lod CONTQ=93.00;DP=13699 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6556,3,0:1.974e-04,1.510e-04:6559:base_quality;t_lod:28,18,0:336,417,0:60,60,0:52,0:0.010,0.010,4.574e-04:7.926e-05,1.798e-04,1.000:-3.393e+00,-3.520e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.790e+00,-3.790e+00 +MT 16020 . T A, . base_quality;t_lod CONTQ=93.00;DP=13693 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6531,8,0:1.690e-04,1.514e-04:6539:base_quality;t_lod:28,7,0:336,328,0:60,60,0:12,0:-3.471e+00,-3.519e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.790e+00,-3.790e+00 +MT 16021 . C A, . base_quality;t_lod CONTQ=93.00;DP=13699 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6556,3,0:1.974e-04,1.510e-04:6559:base_quality;t_lod:28,18,0:336,417,0:60,60,0:52,0:-3.393e+00,-3.520e+00 ./.:7000,0,0:0.00,0.00:7000:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.790e+00,-3.790e+00 MT 16022 . T . . . GT:DP:MIN_DP:TLOD ./.:6556:6556:-3.790e+00 ./.:7000:6964:-3.790e+00 -MT 16023 . G A, . PASS CONTQ=93.00;DP=13726 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:5927,598,0:0.089,1.519e-04:6525:28,29,0:336,332,0:60,60,0:36,0:0.091,0.091,0.092:3.991e-03,7.189e-04,0.995:1061.12,-3.517e+00 ./.:6994,0,0:0.00,0.00:6994:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-9.394e-01,-9.394e-01 -MT 16024 . T G, . base_quality;t_lod CONTQ=93.00;DP=13801 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6531,10,0:1.525e-04,1.515e-04:6541:base_quality;t_lod:29,7,0:335,462,0:60,60,0:47,0:0.010,0.010,1.529e-03:1.224e-04,3.267e-04,1.000:-3.516e+00,-3.519e+00 ./.:7075,0,0:0.00,0.00:7075:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.914e+00,-2.914e+00 +MT 16023 . G A, . PASS CONTQ=93.00;DP=13726 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:5927,598,0:0.089,1.519e-04:6525:28,29,0:336,332,0:60,60,0:36,0:1061.12,-3.517e+00 ./.:6994,0,0:0.00,0.00:6994:.,.,.:.,.,.:.,.,.:.,.:-9.394e-01,-9.394e-01 +MT 16024 . T G, . base_quality;t_lod CONTQ=93.00;DP=13801 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6531,10,0:1.525e-04,1.515e-04:6541:base_quality;t_lod:29,7,0:335,462,0:60,60,0:47,0:-3.516e+00,-3.519e+00 ./.:7075,0,0:0.00,0.00:7075:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.914e+00,-2.914e+00 MT 16025 . T . . END=16032 GT:DP:MIN_DP:TLOD ./.:6562:6545:-3.817e+00 ./.:7097:7080:-3.830e+00 MT 16033 . G . . . GT:DP:MIN_DP:TLOD ./.:6562:6545:-3.817e+00 ./.:7080:7056:-2.942e+00 -MT 16034 . G T, . base_quality;t_lod CONTQ=93.00;DP=13751 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6517,8,0:1.529e-04,1.520e-04:6525:base_quality;t_lod:28,12,0:335,280,0:60,60,0:17,0:0.010,0.010,1.226e-03:8.307e-04,8.233e-05,0.999:-3.515e+00,-3.517e+00 ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.942e+00,-2.942e+00 +MT 16034 . G T, . base_quality;t_lod CONTQ=93.00;DP=13751 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6517,8,0:1.529e-04,1.520e-04:6525:base_quality;t_lod:28,12,0:335,280,0:60,60,0:17,0:-3.515e+00,-3.517e+00 ./.:7080,0,0:0.00,0.00:7080:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.942e+00,-2.942e+00 MT 16035 . G . . . GT:DP:MIN_DP:TLOD ./.:6532:6532:-3.774e+00 ./.:7070:7047:-3.788e+00 -MT 16036 . G T, . base_quality;t_lod CONTQ=93.00;DP=13732 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6523,4,0:1.524e-04,1.520e-04:6527:base_quality;t_lod:28,10,0:335,297,0:60,60,0:62,0:0.010,0.010,6.128e-04:1.153e-04,1.217e-04,1.000:-3.516e+00,-3.517e+00 ./.:7070,0,0:0.00,0.00:7070:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.788e+00,-3.788e+00 +MT 16036 . G T, . base_quality;t_lod CONTQ=93.00;DP=13732 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6523,4,0:1.524e-04,1.520e-04:6527:base_quality;t_lod:28,10,0:335,297,0:60,60,0:62,0:-3.516e+00,-3.517e+00 ./.:7070,0,0:0.00,0.00:7070:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.788e+00,-3.788e+00 MT 16037 . A . . END=16043 GT:DP:MIN_DP:TLOD ./.:6543:6510:-3.807e+00 ./.:7070:7047:-3.788e+00 MT 16044 . T . . . GT:DP:MIN_DP:TLOD ./.:6543:6510:-3.807e+00 ./.:7116:7116:-3.483e+00 MT 16045 . T . . . GT:DP:MIN_DP:TLOD ./.:6543:6510:-3.807e+00 ./.:7130:7130:-2.145e+00 -MT 16046 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13751 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6477,2,13,0:1.999e-04,2.192e-04,1.527e-04:6492:base_quality;t_lod:29,24,8,0:335,305,406,0:60,60,60,0:42,24,0:0.010,0.010,2.003e-03:1.721e-04,2.887e-04,1.000:-3.211e+00,-3.171e+00,-3.339e+00 ./.:7114,0,0,0:0.00,0.00,0.00:7114:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.708e+00,-3.708e+00,-3.708e+00 -MT 16047 . G T, . base_quality;t_lod CONTQ=93.00;DP=13750 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6480,9,0:2.639e-04,1.528e-04:6489:base_quality;t_lod:28,13,0:335,377,0:60,60,0:22,0:0.010,0.010,1.387e-03:5.040e-03,5.981e-05,0.995:-3.259e+00,-3.515e+00 ./.:7114,0,0:0.00,0.00:7114:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.708e+00,-3.708e+00 -MT 16048 . G T, . base_quality;t_lod CONTQ=93.00;DP=13702 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6464,14,0:1.723e-04,1.532e-04:6478:base_quality;t_lod:28,13,0:335,365,0:60,60,0:34,0:0.010,0.010,2.161e-03:0.084,5.232e-05,0.916:-3.462e+00,-3.514e+00 ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.407e+00,-2.407e+00 -MT 16049 . G T, . base_quality;t_lod CONTQ=93.00;DP=13580 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6460,13,0:4.100e-04,1.534e-04:6473:base_quality;t_lod:28,13,0:335,340,0:60,60,0:11,0:0.010,0.010,2.008e-03:2.226e-03,8.296e-05,0.998:-2.868e+00,-3.513e+00 ./.:6995,0,0:0.00,0.00:6995:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.494e+00,-3.494e+00 +MT 16046 . T A,G, . base_quality;t_lod CONTQ=93.00;DP=13751 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6477,2,13,0:1.999e-04,2.192e-04,1.527e-04:6492:base_quality;t_lod:29,24,8,0:335,305,406,0:60,60,60,0:42,24,0:-3.211e+00,-3.171e+00,-3.339e+00 ./.:7114,0,0,0:0.00,0.00,0.00:7114:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.708e+00,-3.708e+00,-3.708e+00 +MT 16047 . G T, . base_quality;t_lod CONTQ=93.00;DP=13750 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6480,9,0:2.639e-04,1.528e-04:6489:base_quality;t_lod:28,13,0:335,377,0:60,60,0:22,0:-3.259e+00,-3.515e+00 ./.:7114,0,0:0.00,0.00:7114:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.708e+00,-3.708e+00 +MT 16048 . G T, . base_quality;t_lod CONTQ=93.00;DP=13702 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6464,14,0:1.723e-04,1.532e-04:6478:base_quality;t_lod:28,13,0:335,365,0:60,60,0:34,0:-3.462e+00,-3.514e+00 ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.407e+00,-2.407e+00 +MT 16049 . G T, . base_quality;t_lod CONTQ=93.00;DP=13580 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6460,13,0:4.100e-04,1.534e-04:6473:base_quality;t_lod:28,13,0:335,340,0:60,60,0:11,0:-2.868e+00,-3.513e+00 ./.:6995,0,0:0.00,0.00:6995:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.494e+00,-3.494e+00 MT 16050 . T . . . GT:DP:MIN_DP:TLOD ./.:6514:6450:-3.806e+00 ./.:6995:6931:-3.494e+00 MT 16051 . A . . END=16052 GT:DP:MIN_DP:TLOD ./.:6514:6450:-3.806e+00 ./.:7009:6956:-3.796e+00 MT 16053 . C . . END=16054 GT:DP:MIN_DP:TLOD ./.:6514:6450:-3.806e+00 ./.:7081:7074:-3.416e+00 MT 16055 . C . . . GT:DP:MIN_DP:TLOD ./.:6514:6450:-3.806e+00 ./.:7072:7072:-3.811e+00 MT 16056 . C . . . GT:DP:MIN_DP:TLOD ./.:6514:6450:-3.806e+00 ./.:7116:7116:-3.436e+00 -MT 16057 . C T, . base_quality;t_lod CONTQ=93.00;DP=13693 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6448,4,0:1.673e-04,1.535e-04:6452:base_quality;t_lod:28,15,0:335,374,0:60,60,0:38,0:0.010,0.010,6.200e-04:2.770e-04,7.288e-05,1.000:-3.475e+00,-3.513e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.000e+00,-3.000e+00 +MT 16057 . C T, . base_quality;t_lod CONTQ=93.00;DP=13693 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6448,4,0:1.673e-04,1.535e-04:6452:base_quality;t_lod:28,15,0:335,374,0:60,60,0:38,0:-3.475e+00,-3.513e+00 ./.:7063,0,0:0.00,0.00:7063:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.000e+00,-3.000e+00 MT 16058 . A . . . GT:DP:MIN_DP:TLOD ./.:7194:7194:-3.460e+00 ./.:7062:6967:-3.716e+00 MT 16059 . A . . END=16060 GT:DP:MIN_DP:TLOD ./.:7127:7086:-3.781e+00 ./.:7062:6967:-3.716e+00 MT 16061 . T . . . GT:DP:MIN_DP:TLOD ./.:7127:7086:-3.781e+00 ./.:7038:7038:-3.214e+00 @@ -9509,140 +9505,140 @@ MT 16116 . A . . . GT:DP:MIN_DP:TLOD ./.:7129:7031:-3.837e+00 ./.:6996 MT 16117 . T . . END=16124 GT:DP:MIN_DP:TLOD ./.:7129:7031:-3.837e+00 ./.:6964:6943:-3.784e+00 MT 16125 . G . . . GT:DP:MIN_DP:TLOD ./.:7129:7031:-3.837e+00 ./.:6782:6782:-3.021e+00 MT 16126 . T . . END=16128 GT:DP:MIN_DP:TLOD ./.:7129:7031:-3.837e+00 ./.:6945:6804:-3.680e+00 -MT 16129 . G A, . t_lod CONTQ=93.00;DP=11024 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7034,0,0:0.00,0.00:7034:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:0.987,0.987 ././.:3883,3,0:3.313e-04,2.555e-04:3886:t_lod:27,28,0:329,311,0:60,60,0:73,0:0.010,0.010,7.720e-04:2.576e-04,1.577e-04,1.000:-3.166e+00,-3.292e+00 +MT 16129 . G A, . t_lod CONTQ=93.00;DP=11024 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7034,0,0:0.00,0.00:7034:PASS:.,.,.:.,.,.:.,.,.:.,.:0.987,0.987 ././.:3883,3,0:3.313e-04,2.555e-04:3886:t_lod:27,28,0:329,311,0:60,60,0:73,0:-3.166e+00,-3.292e+00 MT 16130 . G . . . GT:DP:MIN_DP:TLOD ./.:7039:7039:-3.767e+00 ./.:3860:3847:-3.588e+00 MT 16131 . T . . . GT:DP:MIN_DP:TLOD ./.:7098:7098:-2.135e+00 ./.:3860:3847:-3.588e+00 MT 16132 . A . . . GT:DP:MIN_DP:TLOD ./.:7130:7068:-3.844e+00 ./.:3860:3847:-3.588e+00 -MT 16133 . C A, . base_quality;t_lod CONTQ=93.00;DP=10934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.844e+00,-3.844e+00 ././.:3764,2,0:2.753e-04,2.629e-04:3766:base_quality;t_lod:28,15,0:329,366,0:60,60,0:23,0:0.010,0.00,5.311e-04:1.326e-04,2.810e-04,1.000:-3.259e+00,-3.279e+00 +MT 16133 . C A, . base_quality;t_lod CONTQ=93.00;DP=10934 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.844e+00,-3.844e+00 ././.:3764,2,0:2.753e-04,2.629e-04:3766:base_quality;t_lod:28,15,0:329,366,0:60,60,0:23,0:-3.259e+00,-3.279e+00 MT 16134 . C . . END=16137 GT:DP:MIN_DP:TLOD ./.:7130:7068:-3.844e+00 ./.:3746:3705:-3.575e+00 MT 16138 . A . . END=16139 GT:DP:MIN_DP:TLOD ./.:7130:7068:-3.844e+00 ./.:3656:3637:-3.447e+00 MT 16140 . T . . . GT:DP:MIN_DP:TLOD ./.:7130:7068:-3.844e+00 ./.:3600:3600:-3.525e+00 MT 16141 . A . . . GT:DP:MIN_DP:TLOD ./.:7130:7068:-3.844e+00 ./.:3554:3554:-3.451e+00 MT 16142 . C . . END=16147 GT:DP:MIN_DP:TLOD ./.:7130:7068:-3.844e+00 ./.:3380:3348:-3.549e+00 MT 16148 . C . . . GT:DP:MIN_DP:TLOD ./.:7182:7182:-3.141e+00 ./.:3380:3348:-3.549e+00 -MT 16149 . A C, . base_quality;t_lod CONTQ=93.00;DP=10502 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7157,0,0:0.00,0.00:7157:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 ././.:3223,74,0:1.192e-03,3.042e-04:3297:base_quality;t_lod:28,7,0:329,302,0:60,60,0:50,0:0.020,0.010,0.022:1.328e-05,0.943,0.057:-2.524e+00,-3.216e+00 +MT 16149 . A C, . base_quality;t_lod CONTQ=93.00;DP=10502 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7157,0,0:0.00,0.00:7157:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 ././.:3223,74,0:1.192e-03,3.042e-04:3297:base_quality;t_lod:28,7,0:329,302,0:60,60,0:50,0:-2.524e+00,-3.216e+00 MT 16150 . C . . END=16151 GT:DP:MIN_DP:TLOD ./.:7157:7089:-3.819e+00 ./.:3305:3295:-3.518e+00 MT 16152 . T . . . GT:DP:MIN_DP:TLOD ./.:7157:7089:-3.819e+00 ./.:3226:3226:-3.440e+00 -MT 16153 . G T, . base_quality;t_lod CONTQ=93.00;DP=10419 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7157,0,0:0.00,0.00:7157:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 ././.:3212,9,0:3.674e-04,3.079e-04:3221:base_quality;t_lod:27,12,0:329,402,0:60,60,0:27,0:0.010,0.010,2.794e-03:1.677e-03,1.822e-04,0.998:-3.134e+00,-3.211e+00 +MT 16153 . G T, . base_quality;t_lod CONTQ=93.00;DP=10419 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7157,0,0:0.00,0.00:7157:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 ././.:3212,9,0:3.674e-04,3.079e-04:3221:base_quality;t_lod:27,12,0:329,402,0:60,60,0:27,0:-3.134e+00,-3.211e+00 MT 16154 . T . . . GT:DP:MIN_DP:TLOD ./.:7125:7125:-3.417e+00 ./.:3091:3033:-3.490e+00 -MT 16155 . A C, . base_quality;t_lod CONTQ=93.00;DP=9622 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6400,20,0:1.675e-04,1.545e-04:6420:base_quality;t_lod:29,5,0:330,369,0:60,60,0:20,0:0.010,0.010,3.115e-03:2.100e-04,3.310e-04,0.999:-3.475e+00,-3.510e+00 ./.:3091,0,0:0.00,0.00:3091:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.490e+00,-3.490e+00 +MT 16155 . A C, . base_quality;t_lod CONTQ=93.00;DP=9622 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6400,20,0:1.675e-04,1.545e-04:6420:base_quality;t_lod:29,5,0:330,369,0:60,60,0:20,0:-3.475e+00,-3.510e+00 ./.:3091,0,0:0.00,0.00:3091:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.490e+00,-3.490e+00 MT 16156 . G . . . GT:DP:MIN_DP:TLOD ./.:6423:6423:-3.807e+00 ./.:3091:3033:-3.490e+00 MT 16157 . T . . . GT:DP:MIN_DP:TLOD ./.:6468:6468:-3.469e+00 ./.:3091:3033:-3.490e+00 -MT 16158 . A C, . base_quality;t_lod CONTQ=93.00;DP=9621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6415,6,0:1.605e-04,1.544e-04:6421:base_quality;t_lod:29,9,0:330,350,0:60,60,0:37,0:0.010,0.010,9.344e-04:1.735e-04,1.515e-04,1.000:-3.494e+00,-3.510e+00 ./.:3044,0,0:0.00,0.00:3044:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.812e+00,-2.812e+00 -MT 16159 . C A, . base_quality;t_lod CONTQ=93.00;DP=9654 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6477,0,0:0.00,0.00:6477:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:3057,8,0:6.087e-04,3.227e-04:3065:base_quality;t_lod:28,15,0:328,322,0:60,60,0:31,0:0.010,0.010,2.610e-03:5.544e-04,3.394e-04,0.999:-2.866e+00,-3.190e+00 +MT 16158 . A C, . base_quality;t_lod CONTQ=93.00;DP=9621 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6415,6,0:1.605e-04,1.544e-04:6421:base_quality;t_lod:29,9,0:330,350,0:60,60,0:37,0:-3.494e+00,-3.510e+00 ./.:3044,0,0:0.00,0.00:3044:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.812e+00,-2.812e+00 +MT 16159 . C A, . base_quality;t_lod CONTQ=93.00;DP=9654 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6477,0,0:0.00,0.00:6477:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:3057,8,0:6.087e-04,3.227e-04:3065:base_quality;t_lod:28,15,0:328,322,0:60,60,0:31,0:-2.866e+00,-3.190e+00 MT 16160 . A . . . GT:DP:MIN_DP:TLOD ./.:6477:6476:-3.805e+00 ./.:2999:2999:-3.272e+00 -MT 16161 . T A, . base_quality;t_lod CONTQ=93.00;DP=9593 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6477,0,0:0.00,0.00:6477:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.805e+00,-3.805e+00 ././.:2977,10,0:7.205e-04,3.308e-04:2987:base_quality;t_lod:28,14,0:328,345,0:60,60,0:49,0:0.010,0.010,3.348e-03:5.087e-04,4.894e-04,0.999:-2.774e+00,-3.179e+00 -MT 16162 . A C, . base_quality;t_lod CONTQ=93.00;DP=9369 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6425,5,0:1.642e-04,1.541e-04:6430:base_quality;t_lod:29,10,0:331,343,0:60,60,0:4,0:0.010,0.010,7.776e-04:1.086e-04,1.830e-04,1.000:-3.484e+00,-3.511e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.460e+00,-3.460e+00 -MT 16163 . A C, . base_quality;t_lod CONTQ=93.00;DP=9369 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6413,21,0:1.567e-04,1.543e-04:6434:base_quality;t_lod:28,8,0:330,398,0:60,60,0:28,0:0.010,0.010,3.264e-03:1.175e-04,1.329e-03,0.999:-3.504e+00,-3.511e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.460e+00,-3.460e+00 +MT 16161 . T A, . base_quality;t_lod CONTQ=93.00;DP=9593 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6477,0,0:0.00,0.00:6477:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.805e+00,-3.805e+00 ././.:2977,10,0:7.205e-04,3.308e-04:2987:base_quality;t_lod:28,14,0:328,345,0:60,60,0:49,0:-2.774e+00,-3.179e+00 +MT 16162 . A C, . base_quality;t_lod CONTQ=93.00;DP=9369 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6425,5,0:1.642e-04,1.541e-04:6430:base_quality;t_lod:29,10,0:331,343,0:60,60,0:4,0:-3.484e+00,-3.511e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.460e+00,-3.460e+00 +MT 16163 . A C, . base_quality;t_lod CONTQ=93.00;DP=9369 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6413,21,0:1.567e-04,1.543e-04:6434:base_quality;t_lod:28,8,0:330,398,0:60,60,0:28,0:-3.504e+00,-3.511e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.460e+00,-3.460e+00 MT 16164 . A . . . GT:DP:MIN_DP:TLOD ./.:6484:6484:-3.617e+00 ./.:2858:2777:-3.460e+00 -MT 16165 . A C, . base_quality;t_lod CONTQ=93.00;DP=9362 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6419,17,0:3.959e-04,1.544e-04:6436:base_quality;t_lod:28,9,0:331,367,0:60,60,0:19,0:0.010,0.010,2.641e-03:7.156e-05,0.017,0.983:-3.001e+00,-3.510e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.460e+00,-3.460e+00 -MT 16166 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=9362 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6357,54,0:1.652e-04,1.554e-04:6411:base_quality;strand_artifact;t_lod:28,7,0:331,347,0:60,60,0:29,0:0.010,0.00,8.423e-03:5.106e-17,1.000,1.025e-12:-3.482e+00,-3.508e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.460e+00,-3.460e+00 +MT 16165 . A C, . base_quality;t_lod CONTQ=93.00;DP=9362 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6419,17,0:3.959e-04,1.544e-04:6436:base_quality;t_lod:28,9,0:331,367,0:60,60,0:19,0:-3.001e+00,-3.510e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.460e+00,-3.460e+00 +MT 16166 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=9362 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6357,54,0:1.652e-04,1.554e-04:6411:base_quality;strand_artifact;t_lod:28,7,0:331,347,0:60,60,0:29,0:-3.482e+00,-3.508e+00 ./.:2858,0,0:0.00,0.00:2858:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.460e+00,-3.460e+00 MT 16167 . C . . . GT:DP:MIN_DP:TLOD ./.:6484:6481:-3.806e+00 ./.:2858:2777:-3.460e+00 -MT 16168 . C A, . base_quality;t_lod CONTQ=93.00;DP=9353 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6484,0,0:0.00,0.00:6484:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.806e+00,-3.806e+00 ././.:2768,4,0:3.587e-04,3.563e-04:2772:base_quality;t_lod:28,14,0:327,331,0:60,60,0:11,0:0.00,0.010,1.443e-03:0.157,6.037e-05,0.843:-3.144e+00,-3.147e+00 -MT 16169 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=9423 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6413,10,0,0:2.837e-04,1.543e-04,1.543e-04:6423:base_quality;t_lod:28,19,0,0:331,346,0,0:60,60,0,0:23,0,0:0.010,0.010,1.557e-03:2.321e-03,6.942e-05,0.998:-3.228e+00,-3.510e+00,-3.510e+00 ./././.:2734,6,7,0:4.609e-04,2.522e-03,3.593e-04:2747:t_lod:28,10,29,0:327,442,251,0:60,60,60,0:5,47,0:0.010,0.010,2.554e-03:0.073,9.534e-05,0.926:-2.853e+00,0.780,-2.967e+00 +MT 16168 . C A, . base_quality;t_lod CONTQ=93.00;DP=9353 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6484,0,0:0.00,0.00:6484:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.806e+00,-3.806e+00 ././.:2768,4,0:3.587e-04,3.563e-04:2772:base_quality;t_lod:28,14,0:327,331,0:60,60,0:11,0:-3.144e+00,-3.147e+00 +MT 16169 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=9423 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6413,10,0,0:2.837e-04,1.543e-04,1.543e-04:6423:base_quality;t_lod:28,19,0,0:331,346,0,0:60,60,0,0:23,0,0:-3.228e+00,-3.510e+00,-3.510e+00 ./././.:2734,6,7,0:4.609e-04,2.522e-03,3.593e-04:2747:t_lod:28,10,29,0:327,442,251,0:60,60,60,0:5,47,0:-2.853e+00,0.780,-2.967e+00 MT 16170 . A . . . GT:DP:MIN_DP:TLOD ./.:6475:6475:-3.765e+00 ./.:2673:2673:-3.320e+00 -MT 16171 . A C, . base_quality;t_lod CONTQ=93.00;DP=9133 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:6485,2,0:1.544e-04,1.532e-04:6487:base_quality;t_lod:28,13,0:331,439,0:60,60,0:3,0:0|1:16171_A_C:16171:0.010,0.010,3.083e-04:1.080e-04,1.045e-04,1.000:-3.510e+00,-3.514e+00 ./.:2550,0,0:0.00,0.00:2550:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.198e+00,-2.198e+00 -MT 16172 . T C,A, . PASS CONTQ=93.00;DP=9308 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6357,0,9,0:1.556e-04,1.566e-04,1.556e-04:6366:base_quality;t_lod:28,0,11,0:331,0,347,0:60,0,60,0:0,42,0:0.010,0.010,1.414e-03:1.031e-04,4.982e-04,0.999:-3.507e+00,-3.504e+00,-3.507e+00 ././.:43,2590,0,0:0.984,3.742e-04,3.742e-04:2633:PASS:28,28,0,0:278,327,0,0:60,60,0,0:23,0,0:0.980,0.960,0.984:3.745e-05,0.995,5.313e-03:10723.90,-3.126e+00,-3.126e+00 +MT 16171 . A C, . base_quality;t_lod CONTQ=93.00;DP=9133 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:6485,2,0:1.544e-04,1.532e-04:6487:base_quality;t_lod:28,13,0:331,439,0:60,60,0:3,0:0|1:16171_A_C:16171:-3.510e+00,-3.514e+00 ./.:2550,0,0:0.00,0.00:2550:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.198e+00,-2.198e+00 +MT 16172 . T C,A, . PASS CONTQ=93.00;DP=9308 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6357,0,9,0:1.556e-04,1.566e-04,1.556e-04:6366:base_quality;t_lod:28,0,11,0:331,0,347,0:60,0,60,0:0,42,0:-3.507e+00,-3.504e+00,-3.507e+00 ././.:43,2590,0,0:0.984,3.742e-04,3.742e-04:2633:PASS:28,28,0,0:278,327,0,0:60,60,0,0:23,0,0:10723.90,-3.126e+00,-3.126e+00 MT 16173 . C . . END=16174 GT:DP:MIN_DP:TLOD ./.:6421:6385:-3.808e+00 ./.:2551:2532:-3.403e+00 MT 16175 . A . . . GT:DP:MIN_DP:TLOD ./.:6421:6385:-3.808e+00 ./.:2457:2457:-2.338e+00 MT 16176 . C . . END=16177 GT:DP:MIN_DP:TLOD ./.:6421:6385:-3.808e+00 ./.:2408:2373:-3.226e+00 MT 16178 . T . . . GT:DP:MIN_DP:TLOD ./.:6421:6385:-3.808e+00 ./.:2315:2315:-1.398e+00 -MT 16179 . CAA CA,C, . PASS CONTQ=93.00;DP=8882 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6421,0,0,0:0.00,0.00,0.00:6421:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.808e+00,-3.808e+00,-3.808e+00 ./././.:1545,55,182,0:0.027,0.020,4.269e-04:1782:27,27,25,0:326,326,327,0:60,60,60,0:32,37,0:0.030,0.030,0.034:4.425e-03,1.823e-03,0.994:39.06,7.92,-2.893e+00 -MT 16180 . A *, . PASS DP=8882 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6421,0,0:0.00,0.00:6421:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.808e+00,-3.808e+00 ./././.:1545,0,0:4.269e-04,4.269e-04:1782:27,0,0:326,0,0:60,0,0:0,0:0.030,0.030,0.034:4.425e-03,1.823e-03,0.994:-2.893e+00,-2.893e+00 -MT 16181 . A *, . PASS DP=8882 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6421,0,0:0.00,0.00:6421:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.808e+00,-3.808e+00 ./././.:1545,0,0:4.269e-04,4.269e-04:1782:27,0,0:326,0,0:60,0,0:0,0:0.030,0.030,0.034:4.425e-03,1.823e-03,0.994:-2.893e+00,-2.893e+00 -MT 16182 . A C,AC,ACC,ACCC, . base_quality CONTQ=93.00;DP=8750 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6421,0,0,0,0,0:0.00,0.00,0.00,0.00,0.00:6421:PASS:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.:.,.,.:.,.,.:-3.808e+00,-3.808e+00,-3.808e+00,-3.808e+00,-3.808e+00 ./././././.:638,63,805,136,16,0:6.154e-03,0.473,0.087,4.916e-03,5.038e-04:1658:base_quality:20,5,15,14,23,0:328,312,327,342,307,0:60,60,60,60,60,0:27,32,33,13,0:0.556,0.444,0.558:4.556e-03,0.229,0.766:0.866,936.86,159.49,1.43,-2.603e+00 -MT 16183 . A C,ACCC,AC,ACC,T, . PASS CONTQ=93.00;DP=8932 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6179,202,0,0,0,9,0:6.822e-04,1.590e-04,1.590e-04,1.590e-04,1.835e-04,1.590e-04:6390:base_quality;t_lod:28,5,0,0,0,14,0:331,323,0,0,0,387,0:60,60,0,0,0,60,0:26,0,0,0,35,0:0.030,0.010,0.032:0.00,1.00,0.00:-2.593e+00,-3.322e+00,-3.322e+00,-3.322e+00,-3.261e+00,-3.322e+00 ./././././.:98,1487,185,0,1,0,0:0.925,0.022,4.569e-04,4.578e-04,4.529e-04,4.529e-04:1771:PASS:24,28,14,0,8,0,0:305,328,325,0,390,0,0:60,60,60,0,60,0,0:30,-2147483648,0,12,0,0:0.939,0.828,0.938:1.177e-08,1.000,2.352e-06:3477.78,9.03,-2.642e+00,-2.641e+00,-2.646e+00,-2.646e+00 +MT 16179 . CAA CA,C, . PASS CONTQ=93.00;DP=8882 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6421,0,0,0:0.00,0.00,0.00:6421:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.808e+00,-3.808e+00,-3.808e+00 ./././.:1545,55,182,0:0.027,0.020,4.269e-04:1782:27,27,25,0:326,326,327,0:60,60,60,0:32,37,0:39.06,7.92,-2.893e+00 +MT 16180 . A *, . PASS DP=8882 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6421,0,0:0.00,0.00:6421:.,.,.:.,.,.:.,.,.:.,.:-3.808e+00,-3.808e+00 ./././.:1545,0,0:4.269e-04,4.269e-04:1782:27,0,0:326,0,0:60,0,0:0,0:-2.893e+00,-2.893e+00 +MT 16181 . A *, . PASS DP=8882 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6421,0,0:0.00,0.00:6421:.,.,.:.,.,.:.,.,.:.,.:-3.808e+00,-3.808e+00 ./././.:1545,0,0:4.269e-04,4.269e-04:1782:27,0,0:326,0,0:60,0,0:0,0:-2.893e+00,-2.893e+00 +MT 16182 . A C,AC,ACC,ACCC, . base_quality CONTQ=93.00;DP=8750 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6421,0,0,0,0,0:0.00,0.00,0.00,0.00,0.00:6421:PASS:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.,.:.,.,.,.,.:-3.808e+00,-3.808e+00,-3.808e+00,-3.808e+00,-3.808e+00 ./././././.:638,63,805,136,16,0:6.154e-03,0.473,0.087,4.916e-03,5.038e-04:1658:base_quality:20,5,15,14,23,0:328,312,327,342,307,0:60,60,60,60,60,0:27,32,33,13,0:0.866,936.86,159.49,1.43,-2.603e+00 +MT 16183 . A C,ACCC,AC,ACC,T, . PASS CONTQ=93.00;DP=8932 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6179,202,0,0,0,9,0:6.822e-04,1.590e-04,1.590e-04,1.590e-04,1.835e-04,1.590e-04:6390:base_quality;t_lod:28,5,0,0,0,14,0:331,323,0,0,0,387,0:60,60,0,0,0,60,0:26,0,0,0,35,0:-2.593e+00,-3.322e+00,-3.322e+00,-3.322e+00,-3.261e+00,-3.322e+00 ./././././.:98,1487,185,0,1,0,0:0.925,0.022,4.569e-04,4.578e-04,4.529e-04,4.529e-04:1771:PASS:24,28,14,0,8,0,0:305,328,325,0,390,0,0:60,60,60,0,60,0,0:30,-2147483648,0,12,0,0:3477.78,9.03,-2.642e+00,-2.641e+00,-2.646e+00,-2.646e+00 MT 16184 . C . . . GT:DP:MIN_DP:TLOD ./.:6423:6409:-3.801e+00 ./.:2093:2093:-2.490e+00 MT 16185 . C . . . GT:DP:MIN_DP:TLOD ./.:6423:6409:-3.801e+00 ./.:2075:2075:-3.160e+00 -MT 16186 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=8668 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6418,9,6,0:1.905e-04,1.792e-04,1.542e-04:6433:base_quality;t_lod:28,13,14,0:332,340,336,0:60,60,60,0:22,45,0:0.010,0.010,1.400e-03:7.437e-05,1.407e-03,0.999:-3.237e+00,-3.270e+00,-3.335e+00 ./.:2061,0,0,0:0.00,0.00,0.00:2061:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-1.880e+00,-1.880e+00,-1.880e+00 +MT 16186 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=8668 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6418,9,6,0:1.905e-04,1.792e-04,1.542e-04:6433:base_quality;t_lod:28,13,14,0:332,340,336,0:60,60,60,0:22,45,0:-3.237e+00,-3.270e+00,-3.335e+00 ./.:2061,0,0,0:0.00,0.00,0.00:2061:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-1.880e+00,-1.880e+00,-1.880e+00 MT 16187 . C . . . GT:DP:MIN_DP:TLOD ./.:6408:6349:-3.806e+00 ./.:2067:2067:-3.318e+00 -MT 16188 . CT C, . t_lod CONTQ=93.00;DP=8708 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6408,0,0:0.00,0.00:6408:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.806e+00,-3.806e+00 ././.:2124,1,0:4.514e-04,4.511e-04:2125:t_lod:28,28,0:327,0,0:60,60,0:7,0:0.00,0.010,4.706e-04:4.710e-03,8.480e-05,0.995:-3.045e+00,-3.045e+00 -MT 16189 . T C,A, . PASS CONTQ=93.00;DP=8672 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6408,0,0,0:0.00,0.00,0.00:6408:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.806e+00,-3.806e+00,-3.806e+00 ./././.:37,2227,2,0:0.982,1.027e-03,4.358e-04:2266:27,28,29,0:293,328,271,0:60,60,60,0:25,15,0:0.980,0.949,0.984:4.223e-06,0.999,6.039e-04:7129.46,-1.455e+00,-2.759e+00 +MT 16188 . CT C, . t_lod CONTQ=93.00;DP=8708 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6408,0,0:0.00,0.00:6408:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.806e+00,-3.806e+00 ././.:2124,1,0:4.514e-04,4.511e-04:2125:t_lod:28,28,0:327,0,0:60,60,0:7,0:-3.045e+00,-3.045e+00 +MT 16189 . T C,A, . PASS CONTQ=93.00;DP=8672 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6408,0,0,0:0.00,0.00,0.00:6408:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.806e+00,-3.806e+00,-3.806e+00 ./././.:37,2227,2,0:0.982,1.027e-03,4.358e-04:2266:27,28,29,0:293,328,271,0:60,60,60,0:25,15,0:7129.46,-1.455e+00,-2.759e+00 MT 16190 . C . . END=16191 GT:DP:MIN_DP:TLOD ./.:6408:6349:-3.806e+00 ./.:2055:2011:-3.344e+00 -MT 16192 . C T, . PASS CONTQ=93.00;DP=8613 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6371,42,0:5.593e-03,1.543e-04:6413:28,28,0:333,372,0:60,60,0:42,0:0.010,0.010,6.549e-03:5.393e-04,3.604e-04,0.999:21.96,-3.511e+00 ./.:2055,0,0:0.00,0.00:2055:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.344e+00,-3.344e+00 +MT 16192 . C T, . PASS CONTQ=93.00;DP=8613 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6371,42,0:5.593e-03,1.543e-04:6413:28,28,0:333,372,0:60,60,0:42,0:21.96,-3.511e+00 ./.:2055,0,0:0.00,0.00:2055:.,.,.:.,.,.:.,.,.:.,.:-3.344e+00,-3.344e+00 MT 16193 . C . . . GT:DP:MIN_DP:TLOD ./.:6437:6437:-3.806e+00 ./.:2055:2011:-3.344e+00 -MT 16194 . A C, . base_quality;t_lod CONTQ=93.00;DP=8618 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD .|.|.:6508,6,0:1.543e-04,1.527e-04:6514:base_quality;t_lod:29,9,0:333,424,0:60,60,0:13,0:0|1:16171_A_C:16171:0.010,0.010,9.211e-04:6.477e-05,9.942e-04,0.999:-3.511e+00,-3.515e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.344e+00,-3.344e+00 +MT 16194 . A C, . base_quality;t_lod CONTQ=93.00;DP=8618 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD .|.|.:6508,6,0:1.543e-04,1.527e-04:6514:base_quality;t_lod:29,9,0:333,424,0:60,60,0:13,0:0|1:16171_A_C:16171:-3.511e+00,-3.515e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.344e+00,-3.344e+00 MT 16195 . T . . END=16197 GT:DP:MIN_DP:TLOD ./.:6444:6423:-3.803e+00 ./.:2055:2011:-3.344e+00 -MT 16198 . T C, . base_quality;t_lod CONTQ=93.00;DP=8607 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6402,9,0:1.580e-04,1.545e-04:6411:base_quality;t_lod:29,8,0:333,395,0:60,60,0:6,0:0.010,0.010,1.404e-03:1.405e-04,2.733e-04,1.000:-3.500e+00,-3.510e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.344e+00,-3.344e+00 +MT 16198 . T C, . base_quality;t_lod CONTQ=93.00;DP=8607 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6402,9,0:1.580e-04,1.545e-04:6411:base_quality;t_lod:29,8,0:333,395,0:60,60,0:6,0:-3.500e+00,-3.510e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.344e+00,-3.344e+00 MT 16199 . T . . END=16203 GT:DP:MIN_DP:TLOD ./.:6454:6428:-3.808e+00 ./.:2055:2011:-3.344e+00 -MT 16204 . G T, . base_quality;t_lod CONTQ=93.00;DP=8557 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6367,4,0:1.599e-04,1.555e-04:6371:base_quality;t_lod:29,15,0:333,425,0:60,60,0:22,0:0.00,0.010,6.278e-04:1.206e-03,5.152e-05,0.999:-3.495e+00,-3.507e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.344e+00,-3.344e+00 -MT 16205 . C A, . base_quality;t_lod CONTQ=93.00;DP=8552 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6374,3,0:1.557e-04,1.553e-04:6377:base_quality;t_lod:29,14,0:333,336,0:60,60,0:11,0:0.010,0.010,4.704e-04:1.688e-04,8.580e-05,1.000:-3.507e+00,-3.508e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.344e+00,-3.344e+00 +MT 16204 . G T, . base_quality;t_lod CONTQ=93.00;DP=8557 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6367,4,0:1.599e-04,1.555e-04:6371:base_quality;t_lod:29,15,0:333,425,0:60,60,0:22,0:-3.495e+00,-3.507e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.344e+00,-3.344e+00 +MT 16205 . C A, . base_quality;t_lod CONTQ=93.00;DP=8552 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6374,3,0:1.557e-04,1.553e-04:6377:base_quality;t_lod:29,14,0:333,336,0:60,60,0:11,0:-3.507e+00,-3.508e+00 ./.:2055,0,0:0.00,0.00:2055:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.344e+00,-3.344e+00 MT 16206 . A . . END=16208 GT:DP:MIN_DP:TLOD ./.:6372:6324:-3.797e+00 ./.:2055:2011:-3.344e+00 -MT 16209 . T C, . t_lod CONTQ=93.00;DP=8686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:6372,0,0:0.00,0.00:6372:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.797e+00,-3.797e+00 .|.|.:2355,6,0:2.890e-03,4.230e-04:2361:t_lod:29,29,0:331,255,0:60,60,0:52,0:0|1:16209_T_C:16209:0.010,0.010,2.541e-03:0.182,8.305e-05,0.818:5.60,-3.073e+00 +MT 16209 . T C, . t_lod CONTQ=93.00;DP=8686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:6372,0,0:0.00,0.00:6372:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.797e+00,-3.797e+00 .|.|.:2355,6,0:2.890e-03,4.230e-04:2361:t_lod:29,29,0:331,255,0:60,60,0:52,0:0|1:16209_T_C:16209:5.60,-3.073e+00 MT 16210 . A . . END=16217 GT:DP:MIN_DP:TLOD ./.:6372:6324:-3.797e+00 ./.:2292:2236:-3.364e+00 -MT 16218 . C T, . t_lod CONTQ=93.00;DP=8828 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:6372,0,0:0.00,0.00:6372:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.797e+00,-3.797e+00 .|.|.:2479,1,0:7.835e-04,4.011e-04:2480:t_lod:28,31,0:330,257,0:60,60,0:23,0:0|1:16218_C_T:16218:0.010,0.00,4.032e-04:2.417e-04,2.017e-04,1.000:-1.968e+00,-3.096e+00 -MT 16219 . A C, . base_quality;t_lod CONTQ=93.00;DP=8852 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6372,0,0:0.00,0.00:6372:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.797e+00,-3.797e+00 ././.:2411,11,0:4.158e-04,4.071e-04:2422:base_quality;t_lod:28,9,0:330,422,0:60,60,0:5,0:0.010,0.00,4.542e-03:2.472e-04,8.683e-03,0.991:-3.080e+00,-3.089e+00 -MT 16220 . A C, . base_quality;t_lod CONTQ=93.00;DP=8836 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6215,37,0:1.741e-04,1.590e-04:6252:base_quality;t_lod:28,5,0:333,346,0:60,60,0:23,0:0.010,0.010,5.918e-03:1.726e-06,0.974,0.026:-3.459e+00,-3.498e+00 ./.:2452,0,0:0.00,0.00:2452:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.396e+00,-3.396e+00 -MT 16221 . C A, . base_quality;t_lod CONTQ=93.00;DP=8829 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6260,7,0:1.968e-04,1.582e-04:6267:base_quality;t_lod:28,13,0:333,275,0:60,60,0:13,0:0.010,0.010,1.117e-03:1.340e-03,7.182e-05,0.999:-3.403e+00,-3.500e+00 ./.:2452,0,0:0.00,0.00:2452:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.396e+00,-3.396e+00 +MT 16218 . C T, . t_lod CONTQ=93.00;DP=8828 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:6372,0,0:0.00,0.00:6372:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.797e+00,-3.797e+00 .|.|.:2479,1,0:7.835e-04,4.011e-04:2480:t_lod:28,31,0:330,257,0:60,60,0:23,0:0|1:16218_C_T:16218:-1.968e+00,-3.096e+00 +MT 16219 . A C, . base_quality;t_lod CONTQ=93.00;DP=8852 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6372,0,0:0.00,0.00:6372:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.797e+00,-3.797e+00 ././.:2411,11,0:4.158e-04,4.071e-04:2422:base_quality;t_lod:28,9,0:330,422,0:60,60,0:5,0:-3.080e+00,-3.089e+00 +MT 16220 . A C, . base_quality;t_lod CONTQ=93.00;DP=8836 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6215,37,0:1.741e-04,1.590e-04:6252:base_quality;t_lod:28,5,0:333,346,0:60,60,0:23,0:-3.459e+00,-3.498e+00 ./.:2452,0,0:0.00,0.00:2452:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.396e+00,-3.396e+00 +MT 16221 . C A, . base_quality;t_lod CONTQ=93.00;DP=8829 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6260,7,0:1.968e-04,1.582e-04:6267:base_quality;t_lod:28,13,0:333,275,0:60,60,0:13,0:-3.403e+00,-3.500e+00 ./.:2452,0,0:0.00,0.00:2452:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.396e+00,-3.396e+00 MT 16222 . C . . . GT:DP:MIN_DP:TLOD ./.:6344:6344:-3.716e+00 ./.:2452:2408:-3.396e+00 -MT 16223 . C T,A, . PASS CONTQ=93.00;DP=9011 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:6248,7,12,0:4.767e-04,2.451e-04,1.583e-04:6267:t_lod:28,28,13,0:334,267,278,0:60,60,60,0:27,23,0:0.010,0.010,1.119e-03:2.126e-04,1.662e-04,1.000:-2.635e+00,-3.127e+00,-3.323e+00 ././.:40,2481,0,0:0.989,3.947e-04,3.947e-04:2521:PASS:27,28,0,0:293,332,0,0:60,60,0,0:26,0,0:0.980,0.980,0.984:0.013,0.058,0.929:8024.53,-3.103e+00,-3.103e+00 -MT 16224 . T C, . base_quality;t_lod CONTQ=93.00;DP=8913 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6159,56,0:2.109e-04,1.601e-04:6215:base_quality;t_lod:28,8,0:333,360,0:60,60,0:22,0:0.010,0.010,9.010e-03:0.630,3.650e-05,0.370:-3.381e+00,-3.495e+00 ./.:2540,0,0:0.00,0.00:2540:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.414e+00,-3.414e+00 +MT 16223 . C T,A, . PASS CONTQ=93.00;DP=9011 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:6248,7,12,0:4.767e-04,2.451e-04,1.583e-04:6267:t_lod:28,28,13,0:334,267,278,0:60,60,60,0:27,23,0:-2.635e+00,-3.127e+00,-3.323e+00 ././.:40,2481,0,0:0.989,3.947e-04,3.947e-04:2521:PASS:27,28,0,0:293,332,0,0:60,60,0,0:26,0,0:8024.53,-3.103e+00,-3.103e+00 +MT 16224 . T C, . base_quality;t_lod CONTQ=93.00;DP=8913 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6159,56,0:2.109e-04,1.601e-04:6215:base_quality;t_lod:28,8,0:333,360,0:60,60,0:22,0:-3.381e+00,-3.495e+00 ./.:2540,0,0:0.00,0.00:2540:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.414e+00,-3.414e+00 MT 16225 . C . . END=16226 GT:DP:MIN_DP:TLOD ./.:6321:6316:-3.777e+00 ./.:2540:2486:-3.414e+00 -MT 16227 . A C, . base_quality;t_lod CONTQ=93.00;DP=8910 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6219,31,0:1.811e-04,1.589e-04:6250:base_quality;t_lod:28,7,0:333,330,0:60,60,0:24,0:0.010,0.010,4.960e-03:1.273e-04,2.981e-03,0.997:-3.443e+00,-3.498e+00 ./.:2540,0,0:0.00,0.00:2540:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.414e+00,-3.414e+00 +MT 16227 . A C, . base_quality;t_lod CONTQ=93.00;DP=8910 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6219,31,0:1.811e-04,1.589e-04:6250:base_quality;t_lod:28,7,0:333,330,0:60,60,0:24,0:-3.443e+00,-3.498e+00 ./.:2540,0,0:0.00,0.00:2540:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.414e+00,-3.414e+00 MT 16228 . C . . . GT:DP:MIN_DP:TLOD ./.:6313:6313:-3.753e+00 ./.:2540:2486:-3.414e+00 -MT 16229 . T C, . base_quality;t_lod CONTQ=93.00;DP=8908 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:6245,17,0:1.657e-04,1.587e-04:6262:base_quality;t_lod:29,8,0:334,424,0:60,60,0:21,0:0.010,0.010,2.715e-03:0.034,6.877e-05,0.966:-3.480e+00,-3.499e+00 ./.:2540,0,0:0.00,0.00:2540:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.414e+00,-3.414e+00 -MT 16230 . A G, . PASS CONTQ=93.00;DP=9770 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7036,0,0:0.00,0.00:7036:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.349e+00,-3.349e+00 ././.:2727,7,0:2.894e-03,3.654e-04:2734:28,28,0:330,257,0:60,60,0:39,0:0.010,0.010,2.560e-03:2.231e-03,1.686e-04,0.998:8.05,-3.136e+00 +MT 16229 . T C, . base_quality;t_lod CONTQ=93.00;DP=8908 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:6245,17,0:1.657e-04,1.587e-04:6262:base_quality;t_lod:29,8,0:334,424,0:60,60,0:21,0:-3.480e+00,-3.499e+00 ./.:2540,0,0:0.00,0.00:2540:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.414e+00,-3.414e+00 +MT 16230 . A G, . PASS CONTQ=93.00;DP=9770 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7036,0,0:0.00,0.00:7036:.,.,.:.,.,.:.,.,.:.,.:-3.349e+00,-3.349e+00 ././.:2727,7,0:2.894e-03,3.654e-04:2734:28,28,0:330,257,0:60,60,0:39,0:8.05,-3.136e+00 MT 16231 . T . . . GT:DP:MIN_DP:TLOD ./.:6976:6976:-2.885e+00 ./.:2654:2604:-3.414e+00 MT 16232 . C . . END=16233 GT:DP:MIN_DP:TLOD ./.:7070:7064:-3.466e+00 ./.:2654:2604:-3.414e+00 -MT 16234 . C T, . t_lod CONTQ=93.00;DP=9854 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.883e+00,-2.883e+00 .|.|.:2734,6,0:2.520e-03,3.608e-04:2740:t_lod:28,29,0:330,255,0:60,60,0:36,0:0|1:16209_T_C:16209:0.010,0.010,2.190e-03:3.346e-03,1.379e-04,0.997:6.13,-3.142e+00 +MT 16234 . C T, . t_lod CONTQ=93.00;DP=9854 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7046,0,0:0.00,0.00:7046:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.883e+00,-2.883e+00 .|.|.:2734,6,0:2.520e-03,3.608e-04:2740:t_lod:28,29,0:330,255,0:60,60,0:36,0:0|1:16209_T_C:16209:6.13,-3.142e+00 MT 16235 . A . . END=16239 GT:DP:MIN_DP:TLOD ./.:7046:6998:-3.772e+00 ./.:2760:2718:-3.450e+00 MT 16240 . A . . . GT:DP:MIN_DP:TLOD ./.:7009:6923:-3.398e+00 ./.:2818:2818:-2.921e+00 MT 16241 . A . . END=16244 GT:DP:MIN_DP:TLOD ./.:7009:6923:-3.398e+00 ./.:2878:2828:-3.469e+00 MT 16245 . C . . . GT:DP:MIN_DP:TLOD ./.:7000:7000:-3.805e+00 ./.:2878:2828:-3.469e+00 MT 16246 . A . . . GT:DP:MIN_DP:TLOD ./.:7035:7035:-3.367e+00 ./.:2878:2828:-3.469e+00 -MT 16247 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=10093 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6995,0,0:0.00,0.00:6995:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.671e+00,-2.671e+00 ././.:2953,50,0:5.411e-04,3.335e-04:3003:base_quality;strand_artifact;t_lod:28,8,0:327,319,0:60,60,0:21,0:0.020,0.00,0.017:2.347e-11,1.000,1.704e-07:-2.979e+00,-3.176e+00 +MT 16247 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=10093 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6995,0,0:0.00,0.00:6995:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.671e+00,-2.671e+00 ././.:2953,50,0:5.411e-04,3.335e-04:3003:base_quality;strand_artifact;t_lod:28,8,0:327,319,0:60,60,0:21,0:-2.979e+00,-3.176e+00 MT 16248 . C . . . GT:DP:MIN_DP:TLOD ./.:7032:7032:-3.821e+00 ./.:3020:3020:-3.476e+00 -MT 16249 . T C, . t_lod CONTQ=93.00;DP=10157 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7020,0,0:0.00,0.00:7020:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-5.779e-01,-5.779e-01 .|.|.:3136,1,0:6.167e-04,3.185e-04:3137:t_lod:28,30,0:326,257,0:60,60,0:54,0:0|1:16218_C_T:16218:0.010,0.00,3.188e-04:1.288e-04,2.159e-04,1.000:-2.164e+00,-3.196e+00 +MT 16249 . T C, . t_lod CONTQ=93.00;DP=10157 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7020,0,0:0.00,0.00:7020:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-5.779e-01,-5.779e-01 .|.|.:3136,1,0:6.167e-04,3.185e-04:3137:t_lod:28,30,0:326,257,0:60,60,0:54,0:0|1:16218_C_T:16218:-2.164e+00,-3.196e+00 MT 16250 . C . . END=16251 GT:DP:MIN_DP:TLOD ./.:7113:7102:-3.746e+00 ./.:3147:3088:-3.498e+00 MT 16252 . A . . . GT:DP:MIN_DP:TLOD ./.:7121:7121:-3.246e+00 ./.:3147:3088:-3.498e+00 MT 16253 . A . . END=16255 GT:DP:MIN_DP:TLOD ./.:7026:6934:-3.754e+00 ./.:3147:3088:-3.498e+00 MT 16256 . C . . . GT:DP:MIN_DP:TLOD ./.:7026:6934:-3.754e+00 ./.:3227:3227:-3.504e+00 -MT 16257 . C CA, . t_lod CONTQ=93.00;DP=10276 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7026,0,0:0.00,0.00:7026:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.754e+00,-3.754e+00 .|.|.:3341,1,0:5.777e-04,2.990e-04:3342:t_lod:28,30,0:325,257,0:60,60,0:62,0:0|1:16218_C_T:16218:0.010,0.00,2.992e-04:1.131e-04,2.180e-04,1.000:-2.218e+00,-3.223e+00 +MT 16257 . C CA, . t_lod CONTQ=93.00;DP=10276 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7026,0,0:0.00,0.00:7026:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.754e+00,-3.754e+00 .|.|.:3341,1,0:5.777e-04,2.990e-04:3342:t_lod:28,30,0:325,257,0:60,60,0:62,0:0|1:16218_C_T:16218:-2.218e+00,-3.223e+00 MT 16258 . A . . . GT:DP:MIN_DP:TLOD ./.:7065:7065:-2.501e+00 ./.:3290:3290:-3.264e+00 MT 16259 . C . . . GT:DP:MIN_DP:TLOD ./.:7082:7082:-3.605e+00 ./.:3327:3327:-3.515e+00 MT 16260 . C . . . GT:DP:MIN_DP:TLOD ./.:7107:7107:-2.555e+00 ./.:3404:3367:-3.492e+00 MT 16261 . C . . END=16262 GT:DP:MIN_DP:TLOD ./.:7089:6979:-3.495e+00 ./.:3404:3367:-3.492e+00 -MT 16263 . TC T, . t_lod CONTQ=93.00;DP=10562 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7089,0,0:0.00,0.00:7089:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.495e+00,-3.495e+00 .|.|.:3582,1,0:5.376e-04,2.789e-04:3583:t_lod:28,30,0:324,257,0:60,60,0:68,0:0|1:16218_C_T:16218:0.010,0.00,2.791e-04:1.014e-04,2.135e-04,1.000:-2.276e+00,-3.254e+00 -MT 16264 . C *, . t_lod DP=10614 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7114,0,0:0.00,0.00:7114:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 .|.|.:3582,0,0:2.789e-04,2.789e-04:3583:t_lod:28,0,0:324,0,0:60,0,0:0,0:0|1:16218_C_T:16218:0.010,0.00,2.791e-04:1.014e-04,2.135e-04,1.000:-3.254e+00,-3.254e+00 +MT 16263 . TC T, . t_lod CONTQ=93.00;DP=10562 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7089,0,0:0.00,0.00:7089:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.495e+00,-3.495e+00 .|.|.:3582,1,0:5.376e-04,2.789e-04:3583:t_lod:28,30,0:324,257,0:60,60,0:68,0:0|1:16218_C_T:16218:-2.276e+00,-3.254e+00 +MT 16264 . C *, . t_lod DP=10614 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7114,0,0:0.00,0.00:7114:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.814e+00,-3.814e+00 .|.|.:3582,0,0:2.789e-04,2.789e-04:3583:t_lod:28,0,0:324,0,0:60,0,0:0,0:0|1:16218_C_T:16218:-3.254e+00,-3.254e+00 MT 16265 . A . . . GT:DP:MIN_DP:TLOD ./.:7114:7031:-3.814e+00 ./.:3516:3516:-3.230e+00 MT 16266 . C . . END=16268 GT:DP:MIN_DP:TLOD ./.:7114:7031:-3.814e+00 ./.:3672:3561:-3.569e+00 MT 16269 . A . . . GT:DP:MIN_DP:TLOD ./.:7118:7118:-2.753e+00 ./.:3672:3561:-3.569e+00 MT 16270 . C . . . GT:DP:MIN_DP:TLOD ./.:7125:7125:-3.700e+00 ./.:3672:3561:-3.569e+00 MT 16271 . T . . . GT:DP:MIN_DP:TLOD ./.:7050:7050:-3.454e+00 ./.:3672:3561:-3.569e+00 MT 16272 . A . . END=16273 GT:DP:MIN_DP:TLOD ./.:7058:7007:-3.747e+00 ./.:3672:3561:-3.569e+00 -MT 16274 . G A, . t_lod CONTQ=93.00;DP=10902 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7058,0,0:0.00,0.00:7058:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.747e+00,-3.747e+00 .|.|.:3894,1,0:4.930e-04,2.565e-04:3895:t_lod:28,29,0:324,257,0:60,60,0:70,0:0|1:16218_C_T:16218:0.010,0.00,2.567e-04:8.883e-05,2.093e-04,1.000:-2.346e+00,-3.290e+00 +MT 16274 . G A, . t_lod CONTQ=93.00;DP=10902 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7058,0,0:0.00,0.00:7058:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.747e+00,-3.747e+00 .|.|.:3894,1,0:4.930e-04,2.565e-04:3895:t_lod:28,29,0:324,257,0:60,60,0:70,0:0|1:16218_C_T:16218:-2.346e+00,-3.290e+00 MT 16275 . A . . END=16277 GT:DP:MIN_DP:TLOD ./.:7058:7007:-3.747e+00 ./.:3876:3848:-3.592e+00 -MT 16278 . C A,T, . t_lod CONTQ=93.00;DP=11113 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7097,0,0,0:0.00,0.00,0.00:7097:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-2.756e+00,-2.756e+00,-2.756e+00 ./././.:3914,3,1,0:2.872e-04,4.787e-04,2.492e-04:3918:t_lod:28,19,28,0:323,332,257,0:60,60,60,0:17,66,0:0.010,0.00,2.554e-04:8.663e-05,2.141e-04,1.000:-3.065e+00,-2.193e+00,-3.126e+00 +MT 16278 . C A,T, . t_lod CONTQ=93.00;DP=11113 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7097,0,0,0:0.00,0.00,0.00:7097:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-2.756e+00,-2.756e+00,-2.756e+00 ./././.:3914,3,1,0:2.872e-04,4.787e-04,2.492e-04:3918:t_lod:28,19,28,0:323,332,257,0:60,60,60,0:17,66,0:-3.065e+00,-2.193e+00,-3.126e+00 MT 16279 . C . . . GT:DP:MIN_DP:TLOD ./.:7144:7144:-3.358e+00 ./.:3981:3981:-3.519e+00 MT 16280 . A . . . GT:DP:MIN_DP:TLOD ./.:7130:7101:-3.750e+00 ./.:4013:4013:-3.413e+00 MT 16281 . A . . . GT:DP:MIN_DP:TLOD ./.:7130:7101:-3.750e+00 ./.:4040:4040:-3.602e+00 MT 16282 . C . . . GT:DP:MIN_DP:TLOD ./.:7130:7101:-3.750e+00 ./.:4069:4069:-3.457e+00 MT 16283 . A . . . GT:DP:MIN_DP:TLOD ./.:7130:7101:-3.750e+00 ./.:4102:4102:-3.560e+00 -MT 16284 . A G, . base_quality;t_lod CONTQ=93.00;DP=11319 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.750e+00,-3.750e+00 .|.|.:4217,1,0:4.538e-04,2.369e-04:4218:base_quality;t_lod:28,19,0:323,257,0:60,60,0:60,0:0|1:16218_C_T:16218:0.010,0.00,2.371e-04:7.791e-05,2.079e-04,1.000:-2.412e+00,-3.324e+00 -MT 16285 . A C, . base_quality;t_lod CONTQ=93.00;DP=11311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7068,0,0:0.00,0.00:7068:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.754e+00,-2.754e+00 ././.:4077,59,0:1.441e-03,2.418e-04:4136:base_quality;t_lod:28,7,0:323,321,0:60,60,0:19,0:0.010,0.010,0.014:1.836e-13,1.000,2.089e-09:-1.667e+00,-3.315e+00 +MT 16284 . A G, . base_quality;t_lod CONTQ=93.00;DP=11319 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7130,0,0:0.00,0.00:7130:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.750e+00,-3.750e+00 .|.|.:4217,1,0:4.538e-04,2.369e-04:4218:base_quality;t_lod:28,19,0:323,257,0:60,60,0:60,0:0|1:16218_C_T:16218:-2.412e+00,-3.324e+00 +MT 16285 . A C, . base_quality;t_lod CONTQ=93.00;DP=11311 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7068,0,0:0.00,0.00:7068:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.754e+00,-2.754e+00 ././.:4077,59,0:1.441e-03,2.418e-04:4136:base_quality;t_lod:28,7,0:323,321,0:60,60,0:19,0:-1.667e+00,-3.315e+00 MT 16286 . C . . . GT:DP:MIN_DP:TLOD ./.:7096:7096:-3.666e+00 ./.:4210:4193:-3.594e+00 MT 16287 . C . . . GT:DP:MIN_DP:TLOD ./.:7122:7112:-3.339e+00 ./.:4210:4193:-3.594e+00 -MT 16288 . T C, . t_lod CONTQ=93.00;DP=11457 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7122,0,0:0.00,0.00:7122:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.339e+00,-3.339e+00 .|.|.:4344,1,0:4.400e-04,2.300e-04:4345:t_lod:28,29,0:323,257,0:60,60,0:56,0:0|1:16218_C_T:16218:0.010,0.00,2.301e-04:7.397e-05,2.087e-04,1.000:-2.437e+00,-3.337e+00 -MT 16289 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=11466 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.735e+00,-3.735e+00 ././.:4213,49,0:3.298e-04,2.344e-04:4262:base_quality;strand_artifact;t_lod:28,5,0:323,318,0:60,60,0:20,0:0.010,0.00,0.011:1.816e-15,1.000,2.416e-11:-3.180e+00,-3.329e+00 -MT 16290 . C T, . t_lod CONTQ=93.00;DP=11503 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.735e+00,-3.735e+00 .|.|.:4413,1,0:4.328e-04,2.264e-04:4414:t_lod:28,25,0:323,257,0:60,60,0:54,0:0|1:16218_C_T:16218:0.010,0.00,2.266e-04:7.195e-05,2.094e-04,1.000:-2.450e+00,-3.344e+00 +MT 16288 . T C, . t_lod CONTQ=93.00;DP=11457 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7122,0,0:0.00,0.00:7122:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.339e+00,-3.339e+00 .|.|.:4344,1,0:4.400e-04,2.300e-04:4345:t_lod:28,29,0:323,257,0:60,60,0:56,0:0|1:16218_C_T:16218:-2.437e+00,-3.337e+00 +MT 16289 . A C, . base_quality;strand_artifact;t_lod CONTQ=93.00;DP=11466 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.735e+00,-3.735e+00 ././.:4213,49,0:3.298e-04,2.344e-04:4262:base_quality;strand_artifact;t_lod:28,5,0:323,318,0:60,60,0:20,0:-3.180e+00,-3.329e+00 +MT 16290 . C T, . t_lod CONTQ=93.00;DP=11503 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7104,0,0:0.00,0.00:7104:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.735e+00,-3.735e+00 .|.|.:4413,1,0:4.328e-04,2.264e-04:4414:t_lod:28,25,0:323,257,0:60,60,0:54,0:0|1:16218_C_T:16218:-2.450e+00,-3.344e+00 MT 16291 . C . . END=16292 GT:DP:MIN_DP:TLOD ./.:7104:7089:-3.735e+00 ./.:4396:4367:-3.574e+00 -MT 16293 . A T,C, . PASS CONTQ=93.00;DP=11591 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7103,0,0,0:0.00,0.00,0.00:7103:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-1.803e+00,-1.803e+00,-1.803e+00 ./././.:24,4372,1,0:0.995,4.252e-04,2.226e-04:4397:29,28,29,0:293,323,257,0:60,60,60,0:43,51,0:0.990,0.990,0.995:0.024,0.023,0.953:14070.36,-2.288e+00,-3.175e+00 +MT 16293 . A T,C, . PASS CONTQ=93.00;DP=11591 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7103,0,0,0:0.00,0.00,0.00:7103:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-1.803e+00,-1.803e+00,-1.803e+00 ./././.:24,4372,1,0:0.995,4.252e-04,2.226e-04:4397:29,28,29,0:293,323,257,0:60,60,60,0:43,51,0:14070.36,-2.288e+00,-3.175e+00 MT 16294 . C . . . GT:DP:MIN_DP:TLOD ./.:7127:7127:-3.791e+00 ./.:4476:4476:-3.644e+00 MT 16295 . C . . . GT:DP:MIN_DP:TLOD ./.:7104:7104:-3.252e+00 ./.:4494:4494:-3.360e+00 MT 16296 . C . . END=16297 GT:DP:MIN_DP:TLOD ./.:7048:7010:-3.822e+00 ./.:4550:4529:-3.648e+00 MT 16298 . T . . . GT:DP:MIN_DP:TLOD ./.:7020:7020:-3.197e+00 ./.:4550:4529:-3.648e+00 -MT 16299 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=11712 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7047,0,0:0.00,0.00:7047:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.616e+00,-3.616e+00 ././.:4665,0,0:2.142e-04,2.142e-04:4665:base_quality;contamination;mapping_quality;t_lod:29,0,0:323,0,0:60,0,0:0,0:0.00,0.00,0.00:6.559e-05,6.955e-05,1.000:-3.368e+00,-3.368e+00 -MT 16300 . A C, . base_quality;t_lod CONTQ=93.00;DP=11725 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7051,0,0:0.00,0.00:7051:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-2.855e+00,-2.855e+00 ././.:4548,26,0:2.301e-04,2.174e-04:4574:base_quality;t_lod:28,8,0:324,392,0:60,60,0:25,0:0.010,0.010,5.684e-03:1.012e-05,0.879,0.121:-3.338e+00,-3.362e+00 -MT 16301 . C T, . t_lod CONTQ=93.00;DP=11740 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7051,0,0:0.00,0.00:7051:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-2.855e+00,-2.855e+00 .|.|.:4699,1,0:4.053e-04,2.126e-04:4700:t_lod:28,30,0:324,257,0:60,60,0:43,0:0|1:16218_C_T:16218:0.010,0.00,2.128e-04:6.417e-05,2.143e-04,1.000:-2.502e+00,-3.371e+00 +MT 16299 . A G, . base_quality;contamination;mapping_quality;t_lod CONTQ=1.00;DP=11712 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7047,0,0:0.00,0.00:7047:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.616e+00,-3.616e+00 ././.:4665,0,0:2.142e-04,2.142e-04:4665:base_quality;contamination;mapping_quality;t_lod:29,0,0:323,0,0:60,0,0:0,0:-3.368e+00,-3.368e+00 +MT 16300 . A C, . base_quality;t_lod CONTQ=93.00;DP=11725 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7051,0,0:0.00,0.00:7051:PASS:.,.,.:.,.,.:.,.,.:.,.:-2.855e+00,-2.855e+00 ././.:4548,26,0:2.301e-04,2.174e-04:4574:base_quality;t_lod:28,8,0:324,392,0:60,60,0:25,0:-3.338e+00,-3.362e+00 +MT 16301 . C T, . t_lod CONTQ=93.00;DP=11740 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7051,0,0:0.00,0.00:7051:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-2.855e+00,-2.855e+00 .|.|.:4699,1,0:4.053e-04,2.126e-04:4700:t_lod:28,30,0:324,257,0:60,60,0:43,0:0|1:16218_C_T:16218:-2.502e+00,-3.371e+00 MT 16302 . A . . END=16308 GT:DP:MIN_DP:TLOD ./.:7037:6926:-3.832e+00 ./.:4749:4673:-3.669e+00 MT 16309 . A . . . GT:DP:MIN_DP:TLOD ./.:7037:6926:-3.832e+00 ./.:4846:4846:-3.433e+00 -MT 16310 . G T, . base_quality;t_lod CONTQ=93.00;DP=11844 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7037,0,0:0.00,0.00:7037:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.832e+00,-3.832e+00 ././.:4803,3,0:2.072e-04,2.066e-04:4806:base_quality;t_lod:28,12,0:325,325,0:60,60,0:23,0:0.010,0.010,6.242e-04:9.525e-05,2.836e-04,1.000:-3.383e+00,-3.384e+00 -MT 16311 . T C, . t_lod CONTQ=93.00;DP=11992 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7055,0,0:0.00,0.00:7055:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.438e+00,-3.438e+00 ././.:4934,1,0:3.851e-04,2.025e-04:4935:t_lod:29,29,0:325,257,0:60,60,0:33,0:0.010,0.00,2.026e-04:5.870e-05,2.196e-04,1.000:-2.543e+00,-3.393e+00 +MT 16310 . G T, . base_quality;t_lod CONTQ=93.00;DP=11844 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7037,0,0:0.00,0.00:7037:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.832e+00,-3.832e+00 ././.:4803,3,0:2.072e-04,2.066e-04:4806:base_quality;t_lod:28,12,0:325,325,0:60,60,0:23,0:-3.383e+00,-3.384e+00 +MT 16311 . T C, . t_lod CONTQ=93.00;DP=11992 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7055,0,0:0.00,0.00:7055:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.438e+00,-3.438e+00 ././.:4934,1,0:3.851e-04,2.025e-04:4935:t_lod:29,29,0:325,257,0:60,60,0:33,0:-2.543e+00,-3.393e+00 MT 16312 . A . . END=16315 GT:DP:MIN_DP:TLOD ./.:7070:7052:-3.808e+00 ./.:5005:4942:-3.699e+00 MT 16316 . A . . . GT:DP:MIN_DP:TLOD ./.:7090:7084:-3.271e+00 ./.:5005:4942:-3.699e+00 -MT 16317 . A C, . base_quality;t_lod CONTQ=93.00;DP=12205 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.271e+00,-3.271e+00 ././.:4984,22,0:2.027e-04,1.986e-04:5006:base_quality;t_lod:28,8,0:325,384,0:60,60,0:27,0:0.010,0.010,4.395e-03:1.989e-04,1.091e-03,0.999:-3.392e+00,-3.401e+00 +MT 16317 . A C, . base_quality;t_lod CONTQ=93.00;DP=12205 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7090,0,0:0.00,0.00:7090:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.271e+00,-3.271e+00 ././.:4984,22,0:2.027e-04,1.986e-04:5006:base_quality;t_lod:28,8,0:325,384,0:60,60,0:27,0:-3.392e+00,-3.401e+00 MT 16318 . A . . END=16319 GT:DP:MIN_DP:TLOD ./.:7038:7032:-3.703e+00 ./.:5131:5123:-3.701e+00 -MT 16320 . C T, . PASS CONTQ=93.00;DP=12296 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7076,0,0:0.00,0.00:7076:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.445e+00,-3.445e+00 ././.:32,5073,0:0.995,1.945e-04:5105:28,28,0:311,326,0:60,60,0:39,0:0.990,0.990,0.994:0.047,0.014,0.939:16350.64,-3.410e+00 +MT 16320 . C T, . PASS CONTQ=93.00;DP=12296 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7076,0,0:0.00,0.00:7076:.,.,.:.,.,.:.,.,.:.,.:-3.445e+00,-3.445e+00 ././.:32,5073,0:0.995,1.945e-04:5105:28,28,0:311,326,0:60,60,0:39,0:16350.64,-3.410e+00 MT 16321 . C . . . GT:DP:MIN_DP:TLOD ./.:7108:7108:-3.819e+00 ./.:5327:5239:-3.729e+00 MT 16322 . A . . END=16323 GT:DP:MIN_DP:TLOD ./.:7063:7044:-3.466e+00 ./.:5327:5239:-3.729e+00 MT 16324 . T . . END=16325 GT:DP:MIN_DP:TLOD ./.:7062:7042:-3.721e+00 ./.:5327:5239:-3.729e+00 @@ -9651,7 +9647,7 @@ MT 16327 . C . . . GT:DP:MIN_DP:TLOD ./.:7080:7062:-3.729e+00 ./.:5327 MT 16328 . C . . . GT:DP:MIN_DP:TLOD ./.:7080:7062:-3.729e+00 ./.:5477:5477:-3.426e+00 MT 16329 . G . . . GT:DP:MIN_DP:TLOD ./.:6940:6940:-3.252e+00 ./.:5636:5457:-3.751e+00 MT 16330 . T . . END=16337 GT:DP:MIN_DP:TLOD ./.:7080:7029:-3.804e+00 ./.:5636:5457:-3.751e+00 -MT 16338 . A C, . base_quality;t_lod CONTQ=93.00;DP=12821 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7124,0,0:0.00,0.00:7124:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.192e+00,-3.192e+00 ././.:5537,14,0:2.125e-04,1.786e-04:5551:base_quality;t_lod:28,9,0:329,443,0:60,60,0:14,0:0.010,0.010,2.522e-03:2.456e-04,3.431e-04,0.999:-3.372e+00,-3.447e+00 +MT 16338 . A C, . base_quality;t_lod CONTQ=93.00;DP=12821 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7124,0,0:0.00,0.00:7124:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.192e+00,-3.192e+00 ././.:5537,14,0:2.125e-04,1.786e-04:5551:base_quality;t_lod:28,9,0:329,443,0:60,60,0:14,0:-3.372e+00,-3.447e+00 MT 16339 . C . . END=16340 GT:DP:MIN_DP:TLOD ./.:7094:7084:-3.785e+00 ./.:5691:5664:-3.756e+00 MT 16341 . T . . . GT:DP:MIN_DP:TLOD ./.:7057:7057:-3.433e+00 ./.:5691:5664:-3.756e+00 MT 16342 . T . . END=16346 GT:DP:MIN_DP:TLOD ./.:7066:6989:-3.757e+00 ./.:5691:5664:-3.756e+00 @@ -9659,11 +9655,11 @@ MT 16347 . T . . . GT:DP:MIN_DP:TLOD ./.:7025:7025:-2.957e+00 ./.:5691 MT 16348 . C . . . GT:DP:MIN_DP:TLOD ./.:7062:7062:-3.806e+00 ./.:5691:5664:-3.756e+00 MT 16349 . A . . . GT:DP:MIN_DP:TLOD ./.:7072:7072:-3.459e+00 ./.:5691:5664:-3.756e+00 MT 16350 . A . . . GT:DP:MIN_DP:TLOD ./.:7055:7055:-3.547e+00 ./.:5691:5664:-3.756e+00 -MT 16351 . A C, . base_quality;t_lod CONTQ=93.00;DP=12742 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7023,0,0:0.00,0.00:7023:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.111e+00,-3.111e+00 ././.:5573,30,0:1.868e-04,1.778e-04:5603:base_quality;t_lod:28,8,0:330,366,0:60,60,0:32,0:0.010,0.010,5.354e-03:4.386e-05,0.440,0.560:-3.428e+00,-3.449e+00 +MT 16351 . A C, . base_quality;t_lod CONTQ=93.00;DP=12742 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7023,0,0:0.00,0.00:7023:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.111e+00,-3.111e+00 ././.:5573,30,0:1.868e-04,1.778e-04:5603:base_quality;t_lod:28,8,0:330,366,0:60,60,0:32,0:-3.428e+00,-3.449e+00 MT 16352 . T . . . GT:DP:MIN_DP:TLOD ./.:7023:7009:-3.111e+00 ./.:5744:5707:-3.752e+00 MT 16353 . C . . END=16354 GT:DP:MIN_DP:TLOD ./.:7104:7102:-3.755e+00 ./.:5744:5707:-3.752e+00 -MT 16355 . C T, . t_lod CONTQ=93.00;DP=12844 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7087,0,0:0.00,0.00:7087:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.478e+00,-3.478e+00 .|.|.:5688,3,0:6.748e-04,1.748e-04:5691:t_lod:28,28,0:332,0,0:60,60,0:20,0:0|1:16355_C_T:16355:0.00,0.010,5.271e-04:4.412e-04,7.083e-05,0.999:-3.774e-01,-3.457e+00 -MT 16356 . T C, . t_lod CONTQ=93.00;DP=12488 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:SAAF:SAPP:TLOD ./.:7069,0,0:0.00,0.00:7069:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:.,.,.:.,.,.:-3.834e+00,-3.834e+00 .|.|.:5717,3,0:6.718e-04,1.743e-04:5720:t_lod:28,27,0:332,0,0:60,60,0:21,0:0|1:16355_C_T:16355:0.00,0.010,5.245e-04:4.363e-04,7.074e-05,0.999:-3.846e-01,-3.458e+00 +MT 16355 . C T, . t_lod CONTQ=93.00;DP=12844 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7087,0,0:0.00,0.00:7087:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.478e+00,-3.478e+00 .|.|.:5688,3,0:6.748e-04,1.748e-04:5691:t_lod:28,28,0:332,0,0:60,60,0:20,0:0|1:16355_C_T:16355:-3.774e-01,-3.457e+00 +MT 16356 . T C, . t_lod CONTQ=93.00;DP=12488 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:PGT:PID:PS:TLOD ./.:7069,0,0:0.00,0.00:7069:PASS:.,.,.:.,.,.:.,.,.:.,.:.:.:.:-3.834e+00,-3.834e+00 .|.|.:5717,3,0:6.718e-04,1.743e-04:5720:t_lod:28,27,0:332,0,0:60,60,0:21,0:0|1:16355_C_T:16355:-3.846e-01,-3.458e+00 MT 16357 . T . . END=16358 GT:DP:MIN_DP:TLOD ./.:7069:6734:-3.834e+00 ./.:6985:6974:-3.651e+00 MT 16359 . T . . . GT:DP:MIN_DP:TLOD ./.:7069:6734:-3.834e+00 ./.:6951:6951:-6.671e-01 MT 16360 . C . . . GT:DP:MIN_DP:TLOD ./.:7069:6734:-3.834e+00 ./.:6902:6902:-3.721e+00 @@ -9746,66 +9742,66 @@ MT 16475 . T . . . GT:DP:MIN_DP:TLOD ./.:7056:7056:-2.908e+00 ./.:6900 MT 16476 . A . . END=16478 GT:DP:MIN_DP:TLOD ./.:7109:7096:-3.832e+00 ./.:6969:6965:-3.767e+00 MT 16479 . T . . . GT:DP:MIN_DP:TLOD ./.:7109:7096:-3.832e+00 ./.:7048:7025:-3.397e+00 MT 16480 . A . . END=16481 GT:DP:MIN_DP:TLOD ./.:7168:7166:-3.182e+00 ./.:7048:7025:-3.397e+00 -MT 16482 . A G, . base_quality;t_lod CONTQ=93.00;DP=13686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7161,0,0:0.00,0.00:7161:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 ././.:6364,6,0:1.734e-04,1.553e-04:6370:base_quality;t_lod:29,8,0:537,456,0:60,60,0:19,0:0.010,0.010,9.419e-04:8.698e-05,4.262e-04,0.999:-3.459e+00,-3.508e+00 +MT 16482 . A G, . base_quality;t_lod CONTQ=93.00;DP=13686 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7161,0,0:0.00,0.00:7161:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 ././.:6364,6,0:1.734e-04,1.553e-04:6370:base_quality;t_lod:29,8,0:537,456,0:60,60,0:19,0:-3.459e+00,-3.508e+00 MT 16483 . G . . . GT:DP:MIN_DP:TLOD ./.:7161:7120:-3.819e+00 ./.:6472:6472:-3.798e+00 -MT 16484 . T C, . base_quality;t_lod CONTQ=93.00;DP=13699 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7161,0,0:0.00,0.00:7161:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.819e+00,-3.819e+00 ././.:6371,10,0:1.847e-04,1.551e-04:6381:base_quality;t_lod:28,4,0:540,8340,0:60,60,0:13,0:0.010,0.010,1.567e-03:1.538e-04,2.389e-04,1.000:-3.430e+00,-3.508e+00 +MT 16484 . T C, . base_quality;t_lod CONTQ=93.00;DP=13699 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7161,0,0:0.00,0.00:7161:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.819e+00,-3.819e+00 ././.:6371,10,0:1.847e-04,1.551e-04:6381:base_quality;t_lod:28,4,0:540,8340,0:60,60,0:13,0:-3.430e+00,-3.508e+00 MT 16485 . G . . . GT:DP:MIN_DP:TLOD ./.:7161:7120:-3.819e+00 ./.:6504:6496:-3.797e+00 MT 16486 . A . . . GT:DP:MIN_DP:TLOD ./.:7173:7173:-3.473e+00 ./.:6504:6496:-3.797e+00 -MT 16487 . A G,T, . base_quality;t_lod CONTQ=93.00;DP=13749 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7177,0,0,0:0.00,0.00,0.00:7177:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.847e+00,-3.847e+00,-3.847e+00 ./././.:6378,11,3,0:2.514e-04,1.551e-04,1.548e-04:6392:base_quality;t_lod:28,7,13,0:546,469,16144,0:60,60,60,0:40,8,0:0.010,0.010,1.722e-03:6.226e-05,6.217e-03,0.994:-3.102e+00,-3.332e+00,-3.333e+00 +MT 16487 . A G,T, . base_quality;t_lod CONTQ=93.00;DP=13749 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7177,0,0,0:0.00,0.00,0.00:7177:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.847e+00,-3.847e+00,-3.847e+00 ./././.:6378,11,3,0:2.514e-04,1.551e-04,1.548e-04:6392:base_quality;t_lod:28,7,13,0:546,469,16144,0:60,60,60,0:40,8,0:-3.102e+00,-3.332e+00,-3.333e+00 MT 16488 . C . . . GT:DP:MIN_DP:TLOD ./.:7177:7155:-3.847e+00 ./.:6522:6522:-3.811e+00 -MT 16489 . T C, . base_quality;t_lod CONTQ=93.00;DP=13728 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.847e+00,-3.847e+00 ././.:6399,16,0:1.674e-04,1.547e-04:6415:base_quality;t_lod:29,5,0:554,505,0:60,60,0:33,0:0.010,0.010,2.494e-03:1.522e-04,6.216e-04,0.999:-3.475e+00,-3.509e+00 +MT 16489 . T C, . base_quality;t_lod CONTQ=93.00;DP=13728 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7177,0,0:0.00,0.00:7177:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.847e+00,-3.847e+00 ././.:6399,16,0:1.674e-04,1.547e-04:6415:base_quality;t_lod:29,5,0:554,505,0:60,60,0:33,0:-3.475e+00,-3.509e+00 MT 16490 . G . . . GT:DP:MIN_DP:TLOD ./.:7177:7155:-3.847e+00 ./.:6513:6460:-3.808e+00 MT 16491 . T . . . GT:DP:MIN_DP:TLOD ./.:7219:7219:-3.415e+00 ./.:6513:6460:-3.808e+00 MT 16492 . A . . END=16494 GT:DP:MIN_DP:TLOD ./.:7198:7178:-3.712e+00 ./.:6513:6460:-3.808e+00 -MT 16495 . C A, . base_quality;t_lod CONTQ=93.00;DP=13594 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.712e+00,-3.712e+00 ././.:6308,4,0:1.869e-04,1.577e-04:6312:base_quality;t_lod:26,13,0:612,16255,0:60,60,0:55,0:0.010,0.010,6.337e-04:2.338e-04,8.306e-05,1.000:-3.424e+00,-3.501e+00 +MT 16495 . C A, . base_quality;t_lod CONTQ=93.00;DP=13594 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7198,0,0:0.00,0.00:7198:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.712e+00,-3.712e+00 ././.:6308,4,0:1.869e-04,1.577e-04:6312:base_quality;t_lod:26,13,0:612,16255,0:60,60,0:55,0:-3.424e+00,-3.501e+00 MT 16496 . G . . . GT:DP:MIN_DP:TLOD ./.:7088:7088:-2.456e+00 ./.:6362:6359:-3.793e+00 MT 16497 . A . . . GT:DP:MIN_DP:TLOD ./.:7072:7001:-3.830e+00 ./.:6362:6359:-3.793e+00 -MT 16498 . C A, . base_quality;t_lod CONTQ=93.00;DP=13307 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7072,0,0:0.00,0.00:7072:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.830e+00,-3.830e+00 ././.:6214,4,0:1.610e-04,1.602e-04:6218:base_quality;t_lod:28,12,0:675,270,0:60,60,0:40,0:0.010,0.00,6.433e-04:4.567e-05,2.353e-03,0.998:-3.492e+00,-3.494e+00 +MT 16498 . C A, . base_quality;t_lod CONTQ=93.00;DP=13307 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7072,0,0:0.00,0.00:7072:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.830e+00,-3.830e+00 ././.:6214,4,0:1.610e-04,1.602e-04:6218:base_quality;t_lod:28,12,0:675,270,0:60,60,0:40,0:-3.492e+00,-3.494e+00 MT 16499 . A . . END=16501 GT:DP:MIN_DP:TLOD ./.:7072:7001:-3.830e+00 ./.:6249:6234:-3.763e+00 -MT 16502 . T G, . base_quality;t_lod CONTQ=93.00;DP=13167 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:7072,0,0:0.00,0.00:7072:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.830e+00,-3.830e+00 ././.:6075,13,0:1.686e-04,1.638e-04:6088:base_quality;t_lod:29,9,0:749,321,0:60,60,0:43,0:0.010,0.010,2.135e-03:9.016e-05,2.146e-03,0.998:-3.472e+00,-3.485e+00 +MT 16502 . T G, . base_quality;t_lod CONTQ=93.00;DP=13167 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:7072,0,0:0.00,0.00:7072:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.830e+00,-3.830e+00 ././.:6075,13,0:1.686e-04,1.638e-04:6088:base_quality;t_lod:29,9,0:749,321,0:60,60,0:43,0:-3.472e+00,-3.485e+00 MT 16503 . G . . . GT:DP:MIN_DP:TLOD ./.:6965:6965:-2.583e+00 ./.:6058:5961:-3.779e+00 MT 16504 . G . . END=16509 GT:DP:MIN_DP:TLOD ./.:6736:6491:-3.814e+00 ./.:6058:5961:-3.779e+00 -MT 16510 . A C, . base_quality;t_lod CONTQ=93.00;DP=12404 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6736,0,0:0.00,0.00:6736:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 ././.:5798,28,0:2.241e-04,1.713e-04:5826:base_quality;t_lod:29,8,0:15863,450,0:60,60,0:33,0:0.010,0.010,4.806e-03:1.534e-04,1.774e-03,0.998:-3.353e+00,-3.465e+00 +MT 16510 . A C, . base_quality;t_lod CONTQ=93.00;DP=12404 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6736,0,0:0.00,0.00:6736:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.814e+00,-3.814e+00 ././.:5798,28,0:2.241e-04,1.713e-04:5826:base_quality;t_lod:29,8,0:15863,450,0:60,60,0:33,0:-3.353e+00,-3.465e+00 MT 16511 . C . . END=16514 GT:DP:MIN_DP:TLOD ./.:6736:6491:-3.814e+00 ./.:5823:5773:-3.768e+00 -MT 16515 . A C, . base_quality;t_lod CONTQ=93.00;DP=12238 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6736,0,0:0.00,0.00:6736:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.814e+00,-3.814e+00 ././.:5626,18,0:2.167e-04,1.765e-04:5644:base_quality;t_lod:29,8,0:15907,418,0:60,60,0:30,0:0.010,0.010,3.189e-03:1.981e-04,4.573e-04,0.999:-3.364e+00,-3.452e+00 +MT 16515 . A C, . base_quality;t_lod CONTQ=93.00;DP=12238 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6736,0,0:0.00,0.00:6736:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.814e+00,-3.814e+00 ././.:5626,18,0:2.167e-04,1.765e-04:5644:base_quality;t_lod:29,8,0:15907,418,0:60,60,0:30,0:-3.364e+00,-3.452e+00 MT 16516 . G . . . GT:DP:MIN_DP:TLOD ./.:6409:6377:-3.474e+00 ./.:5635:5635:-3.579e+00 -MT 16517 . G T, . base_quality;t_lod CONTQ=93.00;DP=12041 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6409,0,0:0.00,0.00:6409:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.474e+00,-3.474e+00 ././.:5559,6,0:2.789e-04,1.789e-04:5565:base_quality;t_lod:28,13,0:15934,397,0:60,60,0:60,0:0.010,0.010,1.078e-03:1.488e-04,2.538e-04,1.000:-3.236e+00,-3.446e+00 +MT 16517 . G T, . base_quality;t_lod CONTQ=93.00;DP=12041 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6409,0,0:0.00,0.00:6409:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.474e+00,-3.474e+00 ././.:5559,6,0:2.789e-04,1.789e-04:5565:base_quality;t_lod:28,13,0:15934,397,0:60,60,0:60,0:-3.236e+00,-3.446e+00 MT 16518 . G . . . GT:DP:MIN_DP:TLOD ./.:6343:6343:-3.600e+00 ./.:5560:5560:-3.737e+00 -MT 16519 . T C, . PASS CONTQ=93.00;DP=11849 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6270,0,0:0.00,0.00:6270:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:1.94,1.94 ././.:25,5459,0:0.996,1.815e-04:5484:27,28,0:399,15950,0:60,60,0:43,0:0.990,0.990,0.995:0.025,0.024,0.951:17429.14,-3.440e+00 -MT 16520 . C A, . base_quality;t_lod CONTQ=93.00;DP=11785 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:6268,0,0:0.00,0.00:6268:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.698e+00,-3.698e+00 ././.:5446,2,0:2.209e-04,1.826e-04:5448:base_quality;t_lod:28,19,0:15949,328,0:60,60,0:50,0:0.010,0.00,3.671e-04:5.157e-05,5.886e-04,0.999:-3.349e+00,-3.437e+00 +MT 16519 . T C, . PASS CONTQ=93.00;DP=11849 GT:AD:AF:DP:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6270,0,0:0.00,0.00:6270:.,.,.:.,.,.:.,.,.:.,.:1.94,1.94 ././.:25,5459,0:0.996,1.815e-04:5484:27,28,0:399,15950,0:60,60,0:43,0:17429.14,-3.440e+00 +MT 16520 . C A, . base_quality;t_lod CONTQ=93.00;DP=11785 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:6268,0,0:0.00,0.00:6268:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.698e+00,-3.698e+00 ././.:5446,2,0:2.209e-04,1.826e-04:5448:base_quality;t_lod:28,19,0:15949,328,0:60,60,0:50,0:-3.349e+00,-3.437e+00 MT 16521 . A . . . GT:DP:MIN_DP:TLOD ./.:6268:6250:-3.698e+00 ./.:5341:5227:-3.724e+00 MT 16522 . T . . . GT:DP:MIN_DP:TLOD ./.:6218:6218:-3.306e+00 ./.:5341:5227:-3.724e+00 MT 16523 . A . . . GT:DP:MIN_DP:TLOD ./.:6189:6189:-3.682e+00 ./.:5341:5227:-3.724e+00 -MT 16524 . A C, . base_quality;t_lod CONTQ=93.00;DP=7499 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:2173,7,0:4.584e-04,4.517e-04:2180:base_quality;t_lod:28,7,0:430,429,0:60,60,0:25,0:0.010,0.010,3.211e-03:5.233e-04,4.716e-04,0.999:-3.038e+00,-3.044e+00 ./.:5341,0,0:0.00,0.00:5341:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.724e+00,-3.724e+00 -MT 16525 . A C, . base_quality;t_lod CONTQ=93.00;DP=7462 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:2128,9,0:5.201e-04,4.604e-04:2137:base_quality;t_lod:28,6,0:430,16051,0:60,60,0:27,0:0.010,0.010,4.212e-03:1.193e-03,3.351e-04,0.998:-2.983e+00,-3.036e+00 ./.:5341,0,0:0.00,0.00:5341:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.724e+00,-3.724e+00 -MT 16526 . G T, . base_quality;t_lod CONTQ=93.00;DP=7411 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:2097,3,0:4.718e-04,4.687e-04:2100:base_quality;t_lod:28,12,0:431,16286,0:60,60,0:37,0:0.010,0.010,1.429e-03:7.584e-04,2.066e-04,0.999:-3.025e+00,-3.028e+00 ./.:5341,0,0:0.00,0.00:5341:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.724e+00,-3.724e+00 -MT 16527 . C T,A, . base_quality;t_lod CONTQ=93.00;DP=7475 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:2056,1,1,0:4.678e-04,4.790e-04,4.669e-04:2058:base_quality;t_lod:28,12,12,0:430,0,16187,0:60,60,60,0:37,11,0:0.00,0.010,4.861e-04:5.956e-04,1.330e-04,0.999:-2.853e+00,-2.843e+00,-2.853e+00 ././.:5160,17,0,0:2.715e-03,1.911e-04,1.911e-04:5177:t_lod:29,28,0,0:16029,325,0,0:60,60,0,0:43,0,0:0.010,0.010,3.284e-03:1.379e-04,1.357e-03,0.999:3.68,-3.418e+00,-3.418e+00 +MT 16524 . A C, . base_quality;t_lod CONTQ=93.00;DP=7499 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:2173,7,0:4.584e-04,4.517e-04:2180:base_quality;t_lod:28,7,0:430,429,0:60,60,0:25,0:-3.038e+00,-3.044e+00 ./.:5341,0,0:0.00,0.00:5341:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.724e+00,-3.724e+00 +MT 16525 . A C, . base_quality;t_lod CONTQ=93.00;DP=7462 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:2128,9,0:5.201e-04,4.604e-04:2137:base_quality;t_lod:28,6,0:430,16051,0:60,60,0:27,0:-2.983e+00,-3.036e+00 ./.:5341,0,0:0.00,0.00:5341:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.724e+00,-3.724e+00 +MT 16526 . G T, . base_quality;t_lod CONTQ=93.00;DP=7411 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:2097,3,0:4.718e-04,4.687e-04:2100:base_quality;t_lod:28,12,0:431,16286,0:60,60,0:37,0:-3.025e+00,-3.028e+00 ./.:5341,0,0:0.00,0.00:5341:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.724e+00,-3.724e+00 +MT 16527 . C T,A, . base_quality;t_lod CONTQ=93.00;DP=7475 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:2056,1,1,0:4.678e-04,4.790e-04,4.669e-04:2058:base_quality;t_lod:28,12,12,0:430,0,16187,0:60,60,60,0:37,11,0:-2.853e+00,-2.843e+00,-2.853e+00 ././.:5160,17,0,0:2.715e-03,1.911e-04,1.911e-04:5177:t_lod:29,28,0,0:16029,325,0,0:60,60,0,0:43,0,0:3.68,-3.418e+00,-3.418e+00 MT 16528 . C . . . GT:DP:MIN_DP:TLOD ./.:2001:2001:-3.276e+00 ./.:5215:5194:-3.649e+00 -MT 16529 . T G, . base_quality;t_lod CONTQ=93.00;DP=7251 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1962,3,0:5.030e-04,4.995e-04:1965:base_quality;t_lod:29,4,0:429,240,0:60,60,0:15,0:0.010,0.010,1.527e-03:8.315e-04,2.180e-04,0.999:-2.997e+00,-3.000e+00 ./.:5215,0,0:0.00,0.00:5215:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.649e+00,-3.649e+00 +MT 16529 . T G, . base_quality;t_lod CONTQ=93.00;DP=7251 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1962,3,0:5.030e-04,4.995e-04:1965:base_quality;t_lod:29,4,0:429,240,0:60,60,0:15,0:-2.997e+00,-3.000e+00 ./.:5215,0,0:0.00,0.00:5215:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.649e+00,-3.649e+00 MT 16530 . A . . . GT:DP:MIN_DP:TLOD ./.:1792:1672:-3.274e+00 ./.:5215:5194:-3.649e+00 -MT 16531 . A C, . base_quality;t_lod CONTQ=93.00;DP=6986 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:1792,0,0:0.00,0.00:1792:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.274e+00,-3.274e+00 ././.:5148,13,0:2.157e-04,1.918e-04:5161:base_quality;t_lod:29,7,0:16066,15988,0:60,60,0:41,0:0.010,0.010,2.519e-03:3.336e-04,2.641e-04,0.999:-3.365e+00,-3.416e+00 +MT 16531 . A C, . base_quality;t_lod CONTQ=93.00;DP=6986 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:1792,0,0:0.00,0.00:1792:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.274e+00,-3.274e+00 ././.:5148,13,0:2.157e-04,1.918e-04:5161:base_quality;t_lod:29,7,0:16066,15988,0:60,60,0:41,0:-3.365e+00,-3.416e+00 MT 16532 . A . . END=16534 GT:DP:MIN_DP:TLOD ./.:1792:1672:-3.274e+00 ./.:5179:5130:-3.701e+00 -MT 16535 . G T, . base_quality;t_lod CONTQ=93.00;DP=6928 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./.:1792,0,0:0.00,0.00:1792:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.274e+00,-3.274e+00 ././.:5069,8,0:2.598e-04,1.946e-04:5077:base_quality;t_lod:29,12,0:16088,16067,0:60,60,0:22,0:0.010,0.010,1.576e-03:4.736e-04,1.390e-04,0.999:-3.279e+00,-3.410e+00 -MT 16536 . C A, . base_quality;t_lod CONTQ=93.00;DP=7186 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1627,6,0:1.141e-03,5.983e-04:1633:base_quality;t_lod:28,14,0:435,448,0:60,60,0:17,0:0.010,0.010,3.674e-03:2.017e-03,3.001e-04,0.998:-2.551e+00,-2.922e+00 ./.:5456,0,0:0.00,0.00:5456:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.711e+00,-3.711e+00 -MT 16537 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=7163 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:1589,2,0,0:6.165e-04,6.115e-04,6.116e-04:1591:base_quality;t_lod:28,13,0,0:435,16288,0,0:60,60,0,0:21,0,0:0.00,0.010,1.257e-03:1.976e-03,1.726e-04,0.998:-2.733e+00,-2.736e+00,-2.736e+00 ./.:5484,0,0,0:0.00,0.00,0.00:5484:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.492e+00,-3.492e+00,-3.492e+00 +MT 16535 . G T, . base_quality;t_lod CONTQ=93.00;DP=6928 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./.:1792,0,0:0.00,0.00:1792:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.274e+00,-3.274e+00 ././.:5069,8,0:2.598e-04,1.946e-04:5077:base_quality;t_lod:29,12,0:16088,16067,0:60,60,0:22,0:-3.279e+00,-3.410e+00 +MT 16536 . C A, . base_quality;t_lod CONTQ=93.00;DP=7186 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1627,6,0:1.141e-03,5.983e-04:1633:base_quality;t_lod:28,14,0:435,448,0:60,60,0:17,0:-2.551e+00,-2.922e+00 ./.:5456,0,0:0.00,0.00:5456:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.711e+00,-3.711e+00 +MT 16537 . C A,T, . base_quality;t_lod CONTQ=93.00;DP=7163 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:1589,2,0,0:6.165e-04,6.115e-04,6.116e-04:1591:base_quality;t_lod:28,13,0,0:435,16288,0,0:60,60,0,0:21,0,0:-2.733e+00,-2.736e+00,-2.736e+00 ./.:5484,0,0,0:0.00,0.00,0.00:5484:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.492e+00,-3.492e+00,-3.492e+00 MT 16538 . C . . . GT:DP:MIN_DP:TLOD ./.:1542:1542:-3.180e+00 ./.:5484:5478:-3.492e+00 -MT 16539 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7069 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:1498,9,2,0:6.686e-04,6.540e-04,6.499e-04:1509:base_quality;t_lod:28,4,14,0:437,585,8272,0:60,60,60,0:7,18,0:0.010,0.010,5.972e-03:1.670e-03,4.745e-04,0.998:-2.698e+00,-2.707e+00,-2.710e+00 ./.:5484,0,0,0:0.00,0.00,0.00:5484:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.492e+00,-3.492e+00,-3.492e+00 -MT 16540 . C A, . base_quality;t_lod CONTQ=93.00;DP=6730 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1469,1,0:6.673e-04,6.653e-04:1470:base_quality;t_lod:28,2,0:439,177,0:60,60,0:3,0:0.00,0.010,6.803e-04:8.182e-04,1.869e-04,0.999:-2.874e+00,-2.876e+00 ./.:5312,0,0:0.00,0.00:5312:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.720e+00,-3.720e+00 -MT 16541 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=6688 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ./././.:1420,9,0,0:1.248e-03,6.606e-04,6.615e-04:1429:base_quality;t_lod:28,5,0,0:444,16182,0,0:60,60,0,0:8,0,0:0.010,0.010,6.298e-03:3.944e-03,3.672e-04,0.996:-2.209e+00,-2.703e+00,-2.702e+00 ./.:5312,0,0,0:0.00,0.00,0.00:5312:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:.,.,.:.,.,.:-3.720e+00,-3.720e+00,-3.720e+00 +MT 16539 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=7069 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:1498,9,2,0:6.686e-04,6.540e-04,6.499e-04:1509:base_quality;t_lod:28,4,14,0:437,585,8272,0:60,60,60,0:7,18,0:-2.698e+00,-2.707e+00,-2.710e+00 ./.:5484,0,0,0:0.00,0.00,0.00:5484:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.492e+00,-3.492e+00,-3.492e+00 +MT 16540 . C A, . base_quality;t_lod CONTQ=93.00;DP=6730 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1469,1,0:6.673e-04,6.653e-04:1470:base_quality;t_lod:28,2,0:439,177,0:60,60,0:3,0:-2.874e+00,-2.876e+00 ./.:5312,0,0:0.00,0.00:5312:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.720e+00,-3.720e+00 +MT 16541 . A C,T, . base_quality;t_lod CONTQ=93.00;DP=6688 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ./././.:1420,9,0,0:1.248e-03,6.606e-04,6.615e-04:1429:base_quality;t_lod:28,5,0,0:444,16182,0,0:60,60,0,0:8,0,0:-2.209e+00,-2.703e+00,-2.702e+00 ./.:5312,0,0,0:0.00,0.00,0.00:5312:PASS:.,.,.,.:.,.,.,.:.,.,.,.:.,.,.:-3.720e+00,-3.720e+00,-3.720e+00 MT 16542 . C . . END=16543 GT:DP:MIN_DP:TLOD ./.:1324:1283:-3.137e+00 ./.:5312:5178:-3.720e+00 MT 16544 . T . . . GT:DP:MIN_DP:TLOD ./.:1249:1249:-2.243e+00 ./.:5312:5178:-3.720e+00 -MT 16545 . T G, . base_quality;t_lod CONTQ=93.00;DP=6457 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1240,2,0:7.913e-04,7.854e-04:1242:base_quality;t_lod:27,10,0:461,8257,0:60,60,0:6,0:0.010,0.010,1.610e-03:5.932e-04,4.320e-04,0.999:-2.801e+00,-2.804e+00 ./.:5158,0,0:0.00,0.00:5158:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.494e+00,-3.494e+00 +MT 16545 . T G, . base_quality;t_lod CONTQ=93.00;DP=6457 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1240,2,0:7.913e-04,7.854e-04:1242:base_quality;t_lod:27,10,0:461,8257,0:60,60,0:6,0:-2.801e+00,-2.804e+00 ./.:5158,0,0:0.00,0.00:5158:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.494e+00,-3.494e+00 MT 16546 . C . . END=16547 GT:DP:MIN_DP:TLOD ./.:1151:1128:-3.074e+00 ./.:5158:5128:-3.494e+00 MT 16548 . C . . . GT:DP:MIN_DP:TLOD ./.:1090:1090:-2.454e+00 ./.:5029:4949:-3.693e+00 MT 16549 . C . . . GT:DP:MIN_DP:TLOD ./.:1048:1048:-3.016e+00 ./.:5029:4949:-3.693e+00 -MT 16550 . T A, . t_lod CONTQ=93.00;DP=6058 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:1033,1,0:1.611e-03,9.402e-04:1034:t_lod:28,28,0:458,207,0:60,60,0:9,0:0.010,0.00,9.671e-04:3.429e-04,7.453e-04,0.999:-2.318e+00,-2.726e+00 ./.:5029,0,0:0.00,0.00:5029:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.693e+00,-3.693e+00 +MT 16550 . T A, . t_lod CONTQ=93.00;DP=6058 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:1033,1,0:1.611e-03,9.402e-04:1034:t_lod:28,28,0:458,207,0:60,60,0:9,0:-2.318e+00,-2.726e+00 ./.:5029,0,0:0.00,0.00:5029:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.693e+00,-3.693e+00 MT 16551 . T . . . GT:DP:MIN_DP:TLOD ./.:934:908:-2.941e+00 ./.:4904:4904:-3.497e+00 MT 16552 . A . . . GT:DP:MIN_DP:TLOD ./.:934:908:-2.941e+00 ./.:4848:4848:-3.529e+00 -MT 16553 . A C, . base_quality;t_lod CONTQ=93.00;DP=5760 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:890,6,0:1.111e-03,1.076e-03:896:base_quality;t_lod:28,7,0:468,16212,0:60,60,0:9,0:0.00,0.010,6.696e-03:0.069,2.982e-04,0.931:-2.654e+00,-2.668e+00 ./.:4769,0,0:0.00,0.00:4769:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.117e+00,-3.117e+00 +MT 16553 . A C, . base_quality;t_lod CONTQ=93.00;DP=5760 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:890,6,0:1.111e-03,1.076e-03:896:base_quality;t_lod:28,7,0:468,16212,0:60,60,0:9,0:-2.654e+00,-2.668e+00 ./.:4769,0,0:0.00,0.00:4769:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.117e+00,-3.117e+00 MT 16554 . A . . END=16555 GT:DP:MIN_DP:TLOD ./.:790:766:-2.904e+00 ./.:4558:4374:-3.630e+00 -MT 16556 . A C, . base_quality;t_lod CONTQ=93.00;DP=5230 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:754,3,0:2.164e-03,1.258e-03:757:base_quality;t_lod:28,7,0:483,16173,0:60,60,0:8,0:0.010,0.010,3.963e-03:1.735e-03,6.174e-04,0.998:-2.224e+00,-2.600e+00 ./.:4558,0,0:0.00,0.00:4558:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.630e+00,-3.630e+00 +MT 16556 . A C, . base_quality;t_lod CONTQ=93.00;DP=5230 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:754,3,0:2.164e-03,1.258e-03:757:base_quality;t_lod:28,7,0:483,16173,0:60,60,0:8,0:-2.224e+00,-2.600e+00 ./.:4558,0,0:0.00,0.00:4558:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.630e+00,-3.630e+00 MT 16557 . A . . . GT:DP:MIN_DP:TLOD ./.:675:675:-2.796e+00 ./.:4558:4374:-3.630e+00 -MT 16558 . G T, . base_quality;t_lod CONTQ=93.00;DP=5129 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:SAAF:SAPP:TLOD ././.:671,1,0:1.428e-03,1.418e-03:672:base_quality;t_lod:27,2,0:480,160,0:60,60,0:2,0:0.00,0.010,1.488e-03:1.539e-03,4.317e-04,0.998:-2.544e+00,-2.547e+00 ./.:4558,0,0:0.00,0.00:4558:PASS:.,.,.:.,.,.:.,.,.:.,.:.,.,.:.,.,.:-3.630e+00,-3.630e+00 +MT 16558 . G T, . base_quality;t_lod CONTQ=93.00;DP=5129 GT:AD:AF:DP:FT:MBQ:MFRL:MMQ:MPOS:TLOD ././.:671,1,0:1.428e-03,1.418e-03:672:base_quality;t_lod:27,2,0:480,160,0:60,60,0:2,0:-2.544e+00,-2.547e+00 ./.:4558,0,0:0.00,0.00:4558:PASS:.,.,.:.,.,.:.,.,.:.,.:-3.630e+00,-3.630e+00 MT 16559 . A . . . GT:DP:MIN_DP:TLOD ./.:4561:4561:-3.463e+00 ./.:4558:4374:-3.630e+00 MT 16560 . C . . . GT:DP:MIN_DP:TLOD ./.:4477:4477:-2.955e+00 ./.:4558:4374:-3.630e+00 MT 16561 . A . . . 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