From 01fc64c2f8aa351768bd5c1703a88d7a7cb021a8 Mon Sep 17 00:00:00 2001 From: Manuel Holtgrewe Date: Thu, 9 Mar 2023 16:18:47 +0100 Subject: [PATCH] feat: implement seqvar frequency db construction (#2) (#5) --- Cargo.toml | 10 + README.md | 106 + codecov.yml | 2 + misc/helix-to-vcf.py | 91 + src/db/create/seqvar_freqs.rs | 20 - src/db/create/seqvar_freqs/mod.rs | 1489 ++++++ src/db/create/seqvar_freqs/reading.rs | 311 ++ src/db/create/seqvar_freqs/serialized.rs | 623 +++ src/main.rs | 2 +- .../12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf | 903 ++++ .../12-37/gnomad.exomes.r2.1.1.sites.chr2.vcf | 903 ++++ .../gnomad.genomes.r2.1.1.sites.chr1.vcf | 602 +++ .../gnomad.genomes.r2.1.1.sites.chr2.vcf | 602 +++ .../12-38/gnomad.exomes.r2.1.1.sites.chr1.vcf | 4250 +++++++++++++++++ .../12-38/gnomad.exomes.r2.1.1.sites.chr2.vcf | 4250 +++++++++++++++++ .../gnomad.genomes.r2.1.1.sites.chr1.vcf | 946 ++++ .../gnomad.genomes.r2.1.1.sites.chr2.vcf | 946 ++++ .../gnomad.genomes.r3.1.1.sites.chr1.vcf | 946 ++++ .../gnomad.genomes.r3.1.1.sites.chr2.vcf | 946 ++++ .../db/create/seqvar_freqs/mt/gnomad.chrM.vcf | 65 + .../db/create/seqvar_freqs/mt/helix.chrM.vcf | 10 + .../xy-37/gnomad.exomes.r2.1.1.sites.chrX.vcf | 903 ++++ .../xy-37/gnomad.exomes.r2.1.1.sites.chrY.vcf | 903 ++++ .../gnomad.genomes.r2.1.1.sites.chrX.vcf | 602 +++ .../xy-38/gnomad.exomes.r2.1.1.sites.chrX.vcf | 4250 +++++++++++++++++ .../xy-38/gnomad.exomes.r2.1.1.sites.chrY.vcf | 4250 +++++++++++++++++ .../gnomad.genomes.r3.1.1.sites.chrX.vcf | 946 ++++ .../gnomad.genomes.r3.1.1.sites.chrY.vcf | 946 ++++ 28 files changed, 30802 insertions(+), 21 deletions(-) create mode 100644 codecov.yml create mode 100755 misc/helix-to-vcf.py delete mode 100644 src/db/create/seqvar_freqs.rs create mode 100644 src/db/create/seqvar_freqs/mod.rs create mode 100644 src/db/create/seqvar_freqs/reading.rs create mode 100644 src/db/create/seqvar_freqs/serialized.rs create mode 100644 tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr2.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr1.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr2.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-38/gnomad.exomes.r2.1.1.sites.chr1.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-38/gnomad.exomes.r2.1.1.sites.chr2.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r2.1.1.sites.chr1.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r2.1.1.sites.chr2.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r3.1.1.sites.chr1.vcf create mode 100644 tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r3.1.1.sites.chr2.vcf create mode 100644 tests/data/db/create/seqvar_freqs/mt/gnomad.chrM.vcf create mode 100644 tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrX.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrY.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-37/gnomad.genomes.r2.1.1.sites.chrX.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-38/gnomad.exomes.r2.1.1.sites.chrX.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-38/gnomad.exomes.r2.1.1.sites.chrY.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-38/gnomad.genomes.r3.1.1.sites.chrX.vcf create mode 100644 tests/data/db/create/seqvar_freqs/xy-38/gnomad.genomes.r3.1.1.sites.chrY.vcf diff --git a/Cargo.toml b/Cargo.toml index 000f3536..24444a8d 100644 --- a/Cargo.toml +++ b/Cargo.toml @@ -13,8 +13,18 @@ name = "mehari" [dependencies] anyhow = "1.0.69" +byteorder = "1.4.3" clap = { version = "4.1.8", features = ["derive"] } clap-verbosity-flag = "2.0.0" +csv = "1.2.0" +hgvs = "0.2.0" log = "0.4.17" +noodles = { version = "0.33.0", features = ["vcf", "bcf", "csi", "fasta", "bgzf", "tabix"] } +noodles-util = { version = "0.5.0", features = ["noodles-bcf", "noodles-bgzf", "noodles-vcf", "variant"] } +rocksdb = "0.20.1" +serde = { version = "1.0.152", features = ["derive"] } tracing = { version = "0.1.37", features = ["log"] } tracing-subscriber = "0.3.16" + +[dev-dependencies] +pretty_assertions = "1.3.0" diff --git a/README.md b/README.md index 7992ee7d..c759f33a 100644 --- a/README.md +++ b/README.md @@ -7,3 +7,109 @@ Mehari is a software package for annotating VCF files with variant effect. The program uses [hgvs-rs](https://crates.io/crates/hgvs) for projecting genomic variants to transcripts and proteins and thus has high prediction quality. + +## Supported Sequence Variant Frequency Databases + +Mehari can import public sequence variant frequency databases. +The supported set slightly differs between import for GRCh37 and GRCh38. + +**GRCh37** + +- gnomAD r2.1.1 Exomes [`gnomad.exomes.r2.1.1.sites.vcf.bgz`](https://gnomad.broadinstitute.org/downloads#v2) +- gnomAD r2.1.1 Genomes [`gnomad.genomes.r2.1.1.sites.vcf.bgz`](https://gnomad.broadinstitute.org/downloads#v2) +- gnomAD v3.1 mtDNA [`gnomad.genomes.v3.1.sites.chrM.vcf.bgz`](https://gnomad.broadinstitute.org/downloads#v3-mitochondrial-dna) +- HelixMTdb `HelixMTdb_20200327.tsv` + +**GRCh38** + +- gnomAD r2.1.1 lift-over Exomes [`gnomad.exomes.r2.1.1.sites.liftover_grch38.vcf.bgz`](https://gnomad.broadinstitute.org/downloads#v2) +- gnomAD v3.1 Genomes [`gnomad.genomes.v3.1.2.sites.$CHROM.vcf.bgz`](https://gnomad.broadinstitute.org/downloads#v3) +- gnomAD v3.1 mtDNA [`gnomad.genomes.v3.1.sites.chrM.vcf.bgz`](https://gnomad.broadinstitute.org/downloads#v3-mitochondrial-dna) +- HelixMTdb `HelixMTdb_20200327.tsv` + +## Internal Notes + +``` +rm -rf /tmp/out ; cargo run -- db create seqvar-freqs --path-output-db /tmp/out --genome-release grch38 --path-helix-mtdb ~/Downloads/HelixMTdb_20200327.vcf.gz --path-gnomad-mtdna ~/Downloads/gnomad.genomes.v3.1.sites.chrM.vcf.bgz --path-gnomad-exomes-xy tests/data/db/create/seqvar_freqs/xy-38/gnomad.exomes.r2.1.1.sites.chrX.vcf --path-gnomad-exomes-xy tests/data/db/create/seqvar_freqs/xy-38/gnomad.exomes.r2.1.1.sites.chrY.vcf --path-gnomad-genomes-xy tests/data/db/create/seqvar_freqs/xy-38/gnomad.genomes.r3.1.1.sites.chrX.vcf --path-gnomad-genomes-xy tests/data/db/create/seqvar_freqs/xy-38/gnomad.genomes.r3.1.1.sites.chrY.vcf --path-gnomad-exomes-auto tests/data/db/create/seqvar_freqs/12-38/gnomad.exomes.r2.1.1.sites.chr1.vcf --path-gnomad-exomes-auto tests/data/db/create/seqvar_freqs/12-38/gnomad.exomes.r2.1.1.sites.chr2.vcf --path-gnomad-genomes-auto tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r3.1.1.sites.chr1.vcf --path-gnomad-genomes-auto tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r3.1.1.sites.chr2.vcf + +rm -rf /tmp/out ; cargo run -- db create seqvar-freqs --path-output-db /tmp/out --genome-release grch37 --path-gnomad-mtdna ~/Downloads/gnomad.genomes.v3.1.sites.chrM.vcf.bgz --path-gnomad-exomes-xy tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrX.vcf --path-gnomad-exomes-xy tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrY.vcf --path-gnomad-genomes-xy tests/data/db/create/seqvar_freqs/xy-37/gnomad.genomes.r2.1.1.sites.chrX.vcf --path-gnomad-exomes-auto tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf --path-gnomad-exomes-auto tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr2.vcf --path-gnomad-genomes-auto tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr1.vcf --path-gnomad-genomes-auto tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr2 +``` + +``` +prepare() +{ + in=$1 + out=$2 + + zcat $in \ + | head -n 5000 \ + | grep ^# \ + > $out + + zcat $in \ + | grep -v ^# \ + | head -n 3 \ + >> $out +} + +base=/data/sshfs/data/gpfs-1/groups/cubi/work/projects/2021-07-20_varfish-db-downloader-holtgrewe/varfish-db-downloader/ + +mkdir -p tests/data/db/create/seqvar_freqs/{12,xy}-{37,38} + +## 37 exomes + +prepare \ + $base/GRCh37/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chr1.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf +prepare \ + $base/GRCh37/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chr2.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr2.vcf +prepare \ + $base/GRCh37/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chrX.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrX.vcf +prepare \ + $base/GRCh37/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chrY.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrY.vcf + +## 37 genomes + +prepare \ + $base/GRCh37/gnomAD_genomes/r2.1.1/download/gnomad.genomes.r2.1.1.sites.chr1.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr1.vcf +prepare \ + $base/GRCh37/gnomAD_genomes/r2.1.1/download/gnomad.genomes.r2.1.1.sites.chr2.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr2.vcf +prepare \ + $base/GRCh37/gnomAD_genomes/r2.1.1/download/gnomad.genomes.r2.1.1.sites.chrX.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-37/gnomad.genomes.r2.1.1.sites.chrX.vcf + +## 38 exomes + +prepare \ + $base/GRCh38/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chr1.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-38/gnomad.exomes.r2.1.1.sites.chr1.vcf +prepare \ + $base/GRCh38/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chr2.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-38/gnomad.exomes.r2.1.1.sites.chr2.vcf +prepare \ + $base/GRCh38/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chrX.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-38/gnomad.exomes.r2.1.1.sites.chrX.vcf +prepare \ + $base/GRCh38/gnomAD_exomes/r2.1.1/download/gnomad.exomes.r2.1.1.sites.chrY.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-38/gnomad.exomes.r2.1.1.sites.chrY.vcf + +## 38 genomes + +prepare \ + $base/GRCh38/gnomAD_genomes/r3.1.1/download/gnomad.genomes.r3.1.1.sites.chr1.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r3.1.1.sites.chr1.vcf +prepare \ + $base/GRCh38/gnomAD_genomes/r3.1.1/download/gnomad.genomes.r3.1.1.sites.chr2.vcf.bgz \ + tests/data/db/create/seqvar_freqs/12-38/gnomad.genomes.r3.1.1.sites.chr2.vcf +prepare \ + $base/GRCh38/gnomAD_genomes/r3.1.1/download/gnomad.genomes.r3.1.1.sites.chrX.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-38/gnomad.genomes.r3.1.1.sites.chrX.vcf +prepare \ + $base/GRCh38/gnomAD_genomes/r3.1.1/download/gnomad.genomes.r3.1.1.sites.chrY.vcf.bgz \ + tests/data/db/create/seqvar_freqs/xy-38/gnomad.genomes.r3.1.1.sites.chrY.vcf +``` diff --git a/codecov.yml b/codecov.yml new file mode 100644 index 00000000..6a2971b7 --- /dev/null +++ b/codecov.yml @@ -0,0 +1,2 @@ +ignore: + - "misc/*.py" diff --git a/misc/helix-to-vcf.py b/misc/helix-to-vcf.py new file mode 100755 index 00000000..8f0c5d98 --- /dev/null +++ b/misc/helix-to-vcf.py @@ -0,0 +1,91 @@ +#!/usr/bin/env python +"""Helper script to convert the HelixMtDb format to VCF. + +The resulting file will look like this:: + + ##fileformat=VCFv4.2 + ##contig= + ##FILTER= + ##INFO= + ##INFO= + ##INFO= + #CHROM POS ID REF ALT QUAL FILTER INFO + chrM 5 . A C . PASS AN=196554;AC_hom=1;AC_het=0 + chrM 10 . T C . PASS AN=196554;AC_hom=7;AC_het=1 + chrM 11 . C T . PASS AN=196554;AC_hom=0;AC_het=1 +""" + +import csv +import json +import sys + +import vcfpy + +#: Number of individiduals in HelixMtDb +AN = 196_554 + + +def build_writer(): + """Build ``vcfpy`` writer for writing out the VCF file.""" + header = vcfpy.Header(samples=vcfpy.SamplesInfos(sample_names=[])) + header.add_line(vcfpy.HeaderLine("fileformat", "VCFv4.2")) + header.add_contig_line({"ID": "chrM", "length": 16569}) + header.add_filter_line({"ID": "PASS", "Description": "Variant passes all filters"}) + header.add_info_line( + { + "ID": "AN", + "Number": 1, + "Type": "Integer", + "Description": "Overall allele number (number of samples with non-missing genotype)", + } + ) + header.add_info_line( + { + "ID": "AC_hom", + "Number": 1, + "Type": "Integer", + "Description": "Allele counts called as homoplasmic", + } + ) + header.add_info_line( + { + "ID": "AC_het", + "Number": 1, + "Type": "Integer", + "Description": "Alelle counts called as heteroplasmic", + } + ) + return vcfpy.Writer(sys.stdout, header) + + +def main(): + writer = build_writer() + reader = csv.DictReader(sys.stdin, delimiter="\t") + for row in reader: + locus = row["locus"].split(":") + chrom, pos = locus[0], int(locus[1]) + alleles = json.loads(row["alleles"]) + ac_hom = int(row["counts_hom"]) + ac_het = int(row["counts_het"]) + writer.write_record( + vcfpy.Record( + CHROM=chrom, + POS=pos, + ID=[], + REF=alleles[0], + ALT=[vcfpy.Substitution(vcfpy.SNV, alleles[1])], + QUAL=None, + FILTER=["PASS"], + INFO={ + "AN": AN, + "AC_hom": ac_hom, + "AC_het": ac_het, + }, + FORMAT=None, + calls=None, + ) + ) + + +if __name__ == "__main__": + sys.exit(main()) diff --git a/src/db/create/seqvar_freqs.rs b/src/db/create/seqvar_freqs.rs deleted file mode 100644 index 4c5cf5db..00000000 --- a/src/db/create/seqvar_freqs.rs +++ /dev/null @@ -1,20 +0,0 @@ -//! Sequence variant frequency annotation. - -use clap::Parser; - -/// Command line arguments for `db create seqvar-freqs` sub command. -#[derive(Parser, Debug)] -#[command(about = "Construct mehari sequence variant frequencies database", long_about = None)] -pub struct Args {} - -/// Main entry point for `db create seqvar_freqs` sub command. -pub(crate) fn run(common: &crate::common::Args, args: &Args) -> Result<(), anyhow::Error> { - tracing::info!( - "Building sequence variant frequencies table\ncommon args: {:#?}\nargs: {:#?}", - common, - args - ); - - tracing::info!("Done building sequence variant frequency table"); - Ok(()) -} diff --git a/src/db/create/seqvar_freqs/mod.rs b/src/db/create/seqvar_freqs/mod.rs new file mode 100644 index 00000000..6d7709d0 --- /dev/null +++ b/src/db/create/seqvar_freqs/mod.rs @@ -0,0 +1,1489 @@ +//! Population frequencies for sequence variants. + +pub mod reading; +pub mod serialized; + +use std::time::Instant; + +use clap::Parser; +use hgvs::static_data::Assembly; + +use rocksdb::{DBWithThreadMode, SingleThreaded}; + +use self::serialized::auto::Record as AutoRecord; +use self::serialized::mt::Record as MtRecord; +use self::serialized::xy::Record as XyRecord; + +/// Select the genome release to use. +#[derive(clap::ValueEnum, Clone, Copy, Debug, PartialEq, Eq)] +pub enum GenomeRelease { + Grch37, + Grch38, +} + +/// Command line arguments for `db create seqvar-freqs` sub command. +#[derive(Parser, Debug)] +#[command(about = "Construct mehari sequence variant frequencies database", long_about = None)] +pub struct Args { + /// Genome release to use, default is to auto-detect. + #[arg(long, value_enum)] + pub genome_release: Option, + /// Path to the output database to build. + #[arg(long)] + pub path_output_db: String, + + /// Path(s) to the autosomal gnomAD exomes VCF file(s). + #[arg(long)] + pub path_gnomad_exomes_auto: Option>, + /// Path(s) to the autosomal gnomAD genomes VCF file(s). + #[arg(long)] + pub path_gnomad_genomes_auto: Option>, + /// Path(s) to the gonosomal gnomAD exomes VCF file(s). + #[arg(long)] + pub path_gnomad_exomes_xy: Option>, + /// Path(s) to the gonosomal gnomAD genomes VCF file(s). + #[arg(long)] + pub path_gnomad_genomes_xy: Option>, + /// Path(s) to the gnomAD mtDNA VCF file(s). + #[arg(long)] + pub path_gnomad_mtdna: Option, + /// Path(s) to the HelixMtDb TSV file. + #[arg(long)] + pub path_helix_mtdb: Option, + + /// For debug purposes, maximal number of variants to import. + #[arg(long)] + pub max_var_count: Option, +} + +/// Reading of autosomal records. +pub mod auto { + use hgvs::static_data::Assembly; + use noodles::vcf::Record as VcfRecord; + + use super::serialized::auto::Counts as AutoCounts; + use super::serialized::vcf::Var as VcfVar; + + use super::reading::MultiVcfReader; + + /// Helper for reading through gnomAD exomes and genomes data; + pub struct Reader { + /// CSV reader for the gnomAD mitochondrial records. + gnomad_exomes_reader: Option, + /// Next variant from gnomAD. + gnomad_exomes_next: Option, + /// CSV reader for the HelixMtDb records. + gnomad_genomes_reader: Option, + /// Next variant from gnomAD. + gnomad_genomes_next: Option, + } + + impl Reader { + /// Construct new reader with optional paths to gnomAD genomes and exomes data. + /// + /// Optionally, you can provide an assembly to validate the VCF contigs against. + pub fn new( + path_gnomad_exomes: Option<&[&str]>, + path_gnomad_genomes: Option<&[&str]>, + assembly: Option, + ) -> Result { + let mut gnomad_exomes_reader = path_gnomad_exomes + .map(|path_gnomad_exomes| { + tracing::info!("Opening gnomAD exomes file {:?}", &path_gnomad_exomes); + MultiVcfReader::new(path_gnomad_exomes, assembly) + }) + .transpose()?; + + let gnomad_exomes_next = + if let Some(gnomad_exomes_reader) = gnomad_exomes_reader.as_mut() { + gnomad_exomes_reader.pop()?.0 + } else { + None + }; + + let mut gnomad_genomes_reader = path_gnomad_genomes + .map(|path_gnomad_genomes| { + tracing::info!("Opening gnomAD genomes file {:?}", &path_gnomad_genomes); + MultiVcfReader::new(path_gnomad_genomes, assembly) + }) + .transpose()?; + + let gnomad_genomes_next = + if let Some(gnomad_genomes_reader) = gnomad_genomes_reader.as_mut() { + gnomad_genomes_reader.pop()?.0 + } else { + None + }; + + Ok(Self { + gnomad_exomes_reader, + gnomad_genomes_reader, + gnomad_exomes_next, + gnomad_genomes_next, + }) + } + + /// Run the reading of the chrMT frequencies. + /// + /// Returns whether there is a next value. + pub fn run(&mut self, mut func: F) -> Result + where + F: FnMut(VcfVar, AutoCounts, AutoCounts) -> Result<(), anyhow::Error>, + { + match (&self.gnomad_exomes_next, &self.gnomad_genomes_next) { + (None, Some(gnomad_genomes)) => { + func( + VcfVar::from_vcf(gnomad_genomes), + AutoCounts::default(), + AutoCounts::from_vcf(gnomad_genomes), + )?; + self.gnomad_genomes_next = + self.gnomad_genomes_reader.as_mut().unwrap().pop()?.0; + } + (Some(gnomad_exomes), None) => { + func( + VcfVar::from_vcf(gnomad_exomes), + AutoCounts::from_vcf(gnomad_exomes), + AutoCounts::default(), + )?; + self.gnomad_exomes_next = self.gnomad_exomes_reader.as_mut().unwrap().pop()?.0; + } + (Some(gnomad_exomes), Some(gnomad_genomes)) => { + let var_gnomad_exomes = VcfVar::from_vcf(gnomad_exomes); + let var_gnomad_genomes = VcfVar::from_vcf(gnomad_genomes); + match var_gnomad_exomes.cmp(&var_gnomad_genomes) { + std::cmp::Ordering::Less => { + func( + var_gnomad_exomes, + AutoCounts::from_vcf(gnomad_exomes), + AutoCounts::default(), + )?; + self.gnomad_exomes_next = + self.gnomad_exomes_reader.as_mut().unwrap().pop()?.0; + } + std::cmp::Ordering::Equal => { + func( + var_gnomad_exomes, + AutoCounts::from_vcf(gnomad_exomes), + AutoCounts::from_vcf(gnomad_genomes), + )?; + self.gnomad_exomes_next = + self.gnomad_exomes_reader.as_mut().unwrap().pop()?.0; + self.gnomad_genomes_next = + self.gnomad_genomes_reader.as_mut().unwrap().pop()?.0; + } + std::cmp::Ordering::Greater => { + func( + var_gnomad_genomes, + AutoCounts::default(), + AutoCounts::from_vcf(gnomad_genomes), + )?; + self.gnomad_genomes_next = + self.gnomad_genomes_reader.as_mut().unwrap().pop()?.0; + } + } + } + (None, None) => (), + } + + Ok(self.gnomad_exomes_next.is_some() || self.gnomad_genomes_next.is_some()) + } + } +} + +/// Reading of gonosomal records. +pub mod xy { + use hgvs::static_data::Assembly; + use noodles::vcf::Record as VcfRecord; + + use super::serialized::vcf::Var as VcfVar; + use super::serialized::xy::Counts as XyCounts; + + use super::reading::MultiVcfReader; + + /// Helper for reading through gnomAD mtDNA and HelixMtDb data; + pub struct Reader { + /// CSV reader for the gnomAD mitochondrial records. + gnomad_exomes_reader: Option, + /// Next variant from gnomAD. + gnomad_exomes_next: Option, + /// CSV reader for the HelixMtDb records. + gnomad_genomes_reader: Option, + /// Next variant from gnomAD. + gnomad_genomes_next: Option, + } + + impl Reader { + /// Construct new reader with optional paths to gnomAD genomes and exomes data. + /// + /// Optionally, you can provide an assembly to validate the VCF contigs against. + pub fn new( + path_gnomad_exomes: Option<&[&str]>, + path_gnomad_genomes: Option<&[&str]>, + assembly: Option, + ) -> Result { + let mut gnomad_exomes_reader = path_gnomad_exomes + .map(|path_gnomad_exomes| { + tracing::info!("Opening gnomAD exomes file {:?}", &path_gnomad_exomes); + MultiVcfReader::new(path_gnomad_exomes, assembly) + }) + .transpose()?; + + let gnomad_exomes_next = + if let Some(gnomad_exomes_reader) = gnomad_exomes_reader.as_mut() { + gnomad_exomes_reader.pop()?.0 + } else { + None + }; + + let mut gnomad_genomes_reader = path_gnomad_genomes + .map(|path_gnomad_genomes| { + tracing::info!("Opening gnomAD genomes file {:?}", &path_gnomad_genomes); + MultiVcfReader::new(path_gnomad_genomes, assembly) + }) + .transpose()?; + + let gnomad_genomes_next = + if let Some(gnomad_genomes_reader) = gnomad_genomes_reader.as_mut() { + gnomad_genomes_reader.pop()?.0 + } else { + None + }; + + Ok(Self { + gnomad_exomes_reader, + gnomad_genomes_reader, + gnomad_exomes_next, + gnomad_genomes_next, + }) + } + + /// Run the reading of the chrMT frequencies. + /// + /// Returns whether there is a next value. + pub fn run(&mut self, mut func: F) -> Result + where + F: FnMut(VcfVar, XyCounts, XyCounts) -> Result<(), anyhow::Error>, + { + match (&self.gnomad_exomes_next, &self.gnomad_genomes_next) { + (None, Some(gnomad_genomes)) => { + func( + VcfVar::from_vcf(gnomad_genomes), + XyCounts::default(), + XyCounts::from_vcf(gnomad_genomes), + )?; + self.gnomad_genomes_next = + self.gnomad_genomes_reader.as_mut().unwrap().pop()?.0; + } + (Some(gnomad_exomes), None) => { + func( + VcfVar::from_vcf(gnomad_exomes), + XyCounts::from_vcf(gnomad_exomes), + XyCounts::default(), + )?; + self.gnomad_exomes_next = self.gnomad_exomes_reader.as_mut().unwrap().pop()?.0; + } + (Some(gnomad_exomes), Some(gnomad_genomes)) => { + let var_gnomad_exomes = VcfVar::from_vcf(gnomad_exomes); + let var_gnomad_genomes = VcfVar::from_vcf(gnomad_genomes); + match var_gnomad_exomes.cmp(&var_gnomad_genomes) { + std::cmp::Ordering::Less => { + func( + var_gnomad_exomes, + XyCounts::from_vcf(gnomad_exomes), + XyCounts::default(), + )?; + self.gnomad_exomes_next = + self.gnomad_exomes_reader.as_mut().unwrap().pop()?.0; + } + std::cmp::Ordering::Equal => { + func( + var_gnomad_exomes, + XyCounts::from_vcf(gnomad_exomes), + XyCounts::from_vcf(gnomad_genomes), + )?; + self.gnomad_exomes_next = + self.gnomad_exomes_reader.as_mut().unwrap().pop()?.0; + self.gnomad_genomes_next = + self.gnomad_genomes_reader.as_mut().unwrap().pop()?.0; + } + std::cmp::Ordering::Greater => { + func( + var_gnomad_genomes, + XyCounts::default(), + XyCounts::from_vcf(gnomad_genomes), + )?; + self.gnomad_genomes_next = + self.gnomad_genomes_reader.as_mut().unwrap().pop()?.0; + } + } + } + (None, None) => (), + } + + Ok(self.gnomad_exomes_next.is_some() || self.gnomad_genomes_next.is_some()) + } + } +} + +/// Reading of chrMT records. +pub mod mt { + use hgvs::static_data::Assembly; + use noodles::vcf::Record as VcfRecord; + + use super::serialized::mt::Counts as MtCounts; + use super::serialized::vcf::Var as VcfVar; + + use super::reading::MultiVcfReader; + + /// Helper for reading through gnomAD mtDNA and HelixMtDb data; + pub struct Reader { + /// CSV reader for the gnomAD mitochondrial records. + gnomad_reader: Option, + /// Next variant from gnomAD. + gnomad_next: Option, + /// CSV reader for the HelixMtDb records. + helix_reader: Option, + /// Next variant from gnomAD. + helix_next: Option, + } + + impl Reader { + /// Construct new reader with optional paths to HelixMtDb and gnomAD mtDNA. + /// + /// Optionally, you can provide an assembly to validate the VCF contigs against. + pub fn new( + path_gnomad: Option<&str>, + path_helix: Option<&str>, + assembly: Option, + ) -> Result { + let mut gnomad_reader = path_gnomad + .as_ref() + .map(|path_gnomad| { + tracing::info!("Opening gnomAD chrMT file {}", &path_gnomad); + MultiVcfReader::new(&[path_gnomad], assembly) + }) + .transpose()?; + let mut helix_reader = path_helix + .as_ref() + .map(|path_helix| { + tracing::info!("Opening HelixMtDb chrMT file {}", &path_helix); + MultiVcfReader::new(&[path_helix], assembly) + }) + .transpose()?; + + let gnomad_next = if let Some(gnomad_reader) = gnomad_reader.as_mut() { + gnomad_reader.pop()?.0 + } else { + None + }; + let helix_next = if let Some(helix_reader) = helix_reader.as_mut() { + helix_reader.pop()?.0 + } else { + None + }; + + Ok(Self { + gnomad_reader, + helix_reader, + gnomad_next, + helix_next, + }) + } + + /// Run the reading of the chrMT frequencies. + /// + /// Returns whether there is a next value. + pub fn run(&mut self, mut func: F) -> Result + where + F: FnMut(VcfVar, MtCounts, MtCounts) -> Result<(), anyhow::Error>, + { + match (&self.gnomad_next, &self.helix_next) { + (None, Some(helix)) => { + func( + VcfVar::from_vcf(helix), + MtCounts::default(), + MtCounts::from_vcf(helix), + )?; + self.helix_next = self.helix_reader.as_mut().unwrap().pop()?.0; + } + (Some(gnomad), None) => { + func( + VcfVar::from_vcf(gnomad), + MtCounts::from_vcf(gnomad), + MtCounts::default(), + )?; + self.gnomad_next = self.gnomad_reader.as_mut().unwrap().pop()?.0; + } + (Some(gnomad), Some(helix)) => { + let var_gnomad = VcfVar::from_vcf(gnomad); + let var_helix = VcfVar::from_vcf(helix); + match var_gnomad.cmp(&var_helix) { + std::cmp::Ordering::Less => { + func(var_gnomad, MtCounts::from_vcf(gnomad), MtCounts::default())?; + self.gnomad_next = self.gnomad_reader.as_mut().unwrap().pop()?.0; + } + std::cmp::Ordering::Equal => { + func( + var_gnomad, + MtCounts::from_vcf(gnomad), + MtCounts::from_vcf(helix), + )?; + self.helix_next = self.helix_reader.as_mut().unwrap().pop()?.0; + self.gnomad_next = self.gnomad_reader.as_mut().unwrap().pop()?.0; + } + std::cmp::Ordering::Greater => { + func(var_helix, MtCounts::default(), MtCounts::from_vcf(helix))?; + self.helix_next = self.helix_reader.as_mut().unwrap().pop()?.0; + } + } + } + (None, None) => (), + } + + Ok(self.gnomad_next.is_some() || self.helix_next.is_some()) + } + } +} + +/// Import autosomal data. +fn import_autosomal( + args: &Args, + genome_release: Option, + db: &DBWithThreadMode, + cf_gonosomal: &rocksdb::ColumnFamily, +) -> Result<(), anyhow::Error> { + tracing::info!("Processing chr1, ..., chr22 data ..."); + let start = Instant::now(); + let mut chrauto_written = 0usize; + let path_gnomad_exomes: Option> = args + .path_gnomad_exomes_auto + .as_ref() + .map(|paths| paths.iter().map(|s| s.as_str()).collect()); + let path_gnomad_genomes: Option> = args + .path_gnomad_genomes_auto + .as_ref() + .map(|paths| paths.iter().map(|s| s.as_str()).collect()); + let mut auto_reader = auto::Reader::new( + path_gnomad_exomes.as_deref(), + path_gnomad_genomes.as_deref(), + genome_release, + )?; + + let mut prev = Instant::now(); + let mut has_next = true; + while has_next { + has_next = auto_reader.run(|variant, gnomad_exomes, gnomad_genomes| { + if prev.elapsed().as_secs() > 60 { + tracing::info!("at {:?}", &variant); + prev = Instant::now(); + } + + let key: Vec = variant.into(); + let mut value = [0u8; 32]; + AutoRecord { + gnomad_exomes, + gnomad_genomes, + } + .to_buf(&mut value); + db.put_cf(cf_gonosomal, key, value)?; + + chrauto_written += 1; + + Ok(()) + })?; + } + + tracing::info!( + " wrote {} chr1, ..., chr22 records in {:?}", + chrauto_written, + start.elapsed() + ); + Ok(()) +} + +/// Import gonomosomal data. +fn import_gonomosomal( + args: &Args, + genome_release: Option, + db: &DBWithThreadMode, + cf_gonosomal: &rocksdb::ColumnFamily, +) -> Result<(), anyhow::Error> { + tracing::info!("Processing chrX and chrY data ..."); + let start = Instant::now(); + let mut chrxy_written = 0usize; + let path_gnomad_exomes: Option> = args + .path_gnomad_exomes_xy + .as_ref() + .map(|paths| paths.iter().map(|s| s.as_str()).collect()); + let path_gnomad_genomes: Option> = args + .path_gnomad_genomes_xy + .as_ref() + .map(|paths| paths.iter().map(|s| s.as_str()).collect()); + let mut xy_reader = xy::Reader::new( + path_gnomad_exomes.as_deref(), + path_gnomad_genomes.as_deref(), + genome_release, + )?; + + let mut prev = Instant::now(); + let mut has_next = true; + while has_next { + has_next = xy_reader.run(|variant, gnomad_exomes, gnomad_genomes| { + if prev.elapsed().as_secs() > 60 { + tracing::info!("at {:?}", &variant); + prev = Instant::now(); + } + + let key: Vec = variant.into(); + let mut value = [0u8; 32]; + XyRecord { + gnomad_exomes, + gnomad_genomes, + } + .to_buf(&mut value); + db.put_cf(cf_gonosomal, key, value)?; + + chrxy_written += 1; + + Ok(()) + })?; + } + + tracing::info!( + " wrote {} chrX and chrY records in {:?}", + chrxy_written, + start.elapsed() + ); + Ok(()) +} + +/// Import chrMT frequencies. +fn import_chrmt( + args: &Args, + genome_release: Option, + db: &DBWithThreadMode, + cf_mtdna: &rocksdb::ColumnFamily, +) -> Result<(), anyhow::Error> { + tracing::info!("Processing chrMT data ..."); + let start = Instant::now(); + + let mut chrmt_written = 0usize; + let mut mt_reader = mt::Reader::new( + args.path_gnomad_mtdna.as_deref(), + args.path_helix_mtdb.as_deref(), + genome_release, + )?; + + let mut prev = Instant::now(); + let mut has_next = true; + while has_next { + has_next = mt_reader.run(|variant, gnomad_mtdna, helix_mtdb| { + if prev.elapsed().as_secs() > 60 { + tracing::info!("at {:?}", &variant); + prev = Instant::now(); + } + + let key: Vec = variant.into(); + let mut value = [0u8; 24]; + MtRecord { + gnomad_mtdna, + helix_mtdb, + } + .to_buf(&mut value); + db.put_cf(cf_mtdna, key, value)?; + + chrmt_written += 1; + + Ok(()) + })?; + } + + tracing::info!( + " wrote {} chrMT records in {:?}", + chrmt_written, + start.elapsed() + ); + Ok(()) +} + +/// Main entry point for `db create seqvar_freqs` sub command. +pub fn run(common: &crate::common::Args, args: &Args) -> Result<(), anyhow::Error> { + tracing::info!( + "Building sequence variant frequencies table\ncommon args: {:#?}\nargs: {:#?}", + common, + args + ); + + // Guess genome release from paths. + let genome_release = args.genome_release.map(|gr| match gr { + GenomeRelease::Grch37 => Assembly::Grch37p10, // has chrMT! + GenomeRelease::Grch38 => Assembly::Grch38, + }); + + // Open the output database, obtain column family handles, and write out meta data. + tracing::info!("Opening output database"); + let mut options = rocksdb::Options::default(); + options.create_if_missing(true); + options.create_missing_column_families(true); + options.prepare_for_bulk_load(); + let db = rocksdb::DB::open_cf( + &options, + &args.path_output_db, + ["meta", "autosomal", "gonosomal", "mitochondrial"], + )?; + + let cf_meta = db.cf_handle("meta").unwrap(); + let cf_autosomal = db.cf_handle("autosomal").unwrap(); + let cf_gonosomal = db.cf_handle("gonosomal").unwrap(); + let cf_mtdna = db.cf_handle("mitochondrial").unwrap(); + + tracing::info!("Writing meta data to database"); + db.put_cf(cf_meta, "genome-release", format!("{genome_release:?}"))?; + + // Import gnomAD variants in a chromosome-wise fashion. + tracing::info!("Processing autosomal variant data ..."); + + import_autosomal(args, genome_release, &db, cf_autosomal)?; + import_gonomosomal(args, genome_release, &db, cf_gonosomal)?; + import_chrmt(args, genome_release, &db, cf_mtdna)?; + + // Finally, compact manually. + tracing::info!("Enforcing manual compaction"); + db.compact_range_cf(cf_autosomal, None::<&[u8]>, None::<&[u8]>); + db.compact_range_cf(cf_gonosomal, None::<&[u8]>, None::<&[u8]>); + db.compact_range_cf(cf_mtdna, None::<&[u8]>, None::<&[u8]>); + + tracing::info!("Done building sequence variant frequency table"); + Ok(()) +} + +#[cfg(test)] +mod test { + use hgvs::static_data::Assembly; + use pretty_assertions::assert_eq; + + use super::auto::Reader as AutoReader; + use super::mt::Reader as MtReader; + use super::serialized::auto::Counts as AutoCounts; + use super::serialized::mt::Counts as MtCounts; + use super::serialized::vcf::Var as VcfVar; + use super::serialized::xy::Counts as XyCounts; + use super::xy::Reader as XyReader; + + #[test] + fn test_mt_reader() -> Result<(), anyhow::Error> { + let mut reader = MtReader::new( + Some("tests/data/db/create/seqvar_freqs/mt/gnomad.chrM.vcf"), + Some("tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"), + Some(Assembly::Grch37p10), + )?; + + { + let mut called = false; + let res = reader.run(|var, gnomad, helix| { + assert_eq!( + var, + VcfVar { + chrom: String::from("chrM"), + pos: 3, + reference: String::from("T"), + alternative: String::from("C") + } + ); + assert_eq!( + gnomad, + MtCounts { + an: 56434, + ac_hom: 19, + ac_het: 1 + } + ); + assert_eq!(helix, MtCounts::default()); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, gnomad, helix| { + assert_eq!( + var, + VcfVar { + chrom: String::from("chrM"), + pos: 5, + reference: String::from("A"), + alternative: String::from("C") + } + ); + assert_eq!( + helix, + MtCounts { + an: 196554, + ac_hom: 1, + ac_het: 0 + } + ); + assert_eq!(gnomad, MtCounts::default()); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, gnomad, helix| { + assert_eq!( + var, + VcfVar { + chrom: String::from("chrM"), + pos: 6, + reference: String::from("C"), + alternative: String::from("CCTCAA") + } + ); + assert_eq!( + gnomad, + MtCounts { + an: 56433, + ac_hom: 0, + ac_het: 0 + } + ); + assert_eq!(helix, MtCounts::default()); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, gnomad, helix| { + assert_eq!( + var, + VcfVar { + chrom: String::from("chrM"), + pos: 10, + reference: String::from("T"), + alternative: String::from("C") + } + ); + assert_eq!( + helix, + MtCounts { + an: 196554, + ac_hom: 7, + ac_het: 1 + } + ); + assert_eq!( + gnomad, + MtCounts { + an: 56433, + ac_hom: 0, + ac_het: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, gnomad, helix| { + assert_eq!( + var, + VcfVar { + chrom: String::from("chrM"), + pos: 11, + reference: String::from("C"), + alternative: String::from("T") + } + ); + assert_eq!( + helix, + MtCounts { + an: 196554, + ac_hom: 0, + ac_het: 1 + } + ); + assert_eq!(gnomad, MtCounts::default()); + called = true; + Ok(()) + })?; + assert!(!res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|_var, _gnomad, _helix| { + called = true; + Ok(()) + })?; + assert!(!res); + assert!(!called); + } + + Ok(()) + } + + #[test] + fn test_auto_reader() -> Result<(), anyhow::Error> { + let mut reader = AutoReader::new( + Some(&[ + "tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf", + "tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr2.vcf", + ]), + Some(&[ + "tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr1.vcf", + "tests/data/db/create/seqvar_freqs/12-37/gnomad.genomes.r2.1.1.sites.chr2.vcf", + ]), + Some(Assembly::Grch37p10), + )?; + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("1"), + pos: 10067, + reference: String::from("T"), + alternative: String::from("TAACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC") + } + ); + assert_eq!(exomes, AutoCounts::default()); + assert_eq!( + genomes, + AutoCounts { + an: 26342, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("1"), + pos: 10108, + reference: String::from("CAACCCT"), + alternative: String::from("C") + } + ); + assert_eq!(exomes, AutoCounts::default()); + assert_eq!( + genomes, + AutoCounts { + an: 1982, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("1"), + pos: 10109, + reference: String::from("AACCCT"), + alternative: String::from("A") + } + ); + assert_eq!(exomes, AutoCounts::default()); + assert_eq!( + genomes, + AutoCounts { + an: 296, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("1"), + pos: 12198, + reference: String::from("G"), + alternative: String::from("C") + } + ); + assert_eq!(genomes, AutoCounts::default()); + assert_eq!( + exomes, + AutoCounts { + an: 0, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("1"), + pos: 12237, + reference: String::from("G"), + alternative: String::from("A") + } + ); + assert_eq!(genomes, AutoCounts::default()); + assert_eq!( + exomes, + AutoCounts { + an: 0, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("1"), + pos: 12259, + reference: String::from("G"), + alternative: String::from("C") + } + ); + assert_eq!(genomes, AutoCounts::default()); + assert_eq!( + exomes, + AutoCounts { + an: 2, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("2"), + pos: 10205, + reference: String::from("T"), + alternative: String::from("G") + } + ); + assert_eq!(exomes, AutoCounts::default()); + assert_eq!( + genomes, + AutoCounts { + an: 156, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("2"), + pos: 10205, + reference: String::from("TAACCCTACCCGAACCCTAACCCTAACCCTAACCCCTAACCCTAACCCCTAACCCTAACCCTAACCGTAACCCTAACCCTTTACCCTAACCCG"), + alternative: String::from("T") + } + ); + assert_eq!(exomes, AutoCounts::default()); + assert_eq!( + genomes, + AutoCounts { + an: 156, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("2"), + pos: 10206, + reference: String::from("AACCCT"), + alternative: String::from("A") + } + ); + assert_eq!(exomes, AutoCounts::default()); + assert_eq!( + genomes, + AutoCounts { + an: 376, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("2"), + pos: 41559, + reference: String::from("A"), + alternative: String::from("G") + } + ); + assert_eq!(genomes, AutoCounts::default()); + assert_eq!( + exomes, + AutoCounts { + an: 246318, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("2"), + pos: 41569, + reference: String::from("G"), + alternative: String::from("T") + } + ); + assert_eq!(genomes, AutoCounts::default()); + assert_eq!( + exomes, + AutoCounts { + an: 248504, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("2"), + pos: 41574, + reference: String::from("C"), + alternative: String::from("T") + } + ); + assert_eq!(genomes, AutoCounts::default()); + assert_eq!( + exomes, + AutoCounts { + an: 248610, + ac_hom: 0, + ac_het: 0, + } + ); + called = true; + Ok(()) + })?; + assert!(!res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|_var, _exomes, _genomes| { + called = true; + Ok(()) + })?; + assert!(!res); + assert!(!called); + } + + Ok(()) + } + + #[test] + fn test_xy_reader() -> Result<(), anyhow::Error> { + let mut reader = XyReader::new( + Some(&[ + "tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrX.vcf", + "tests/data/db/create/seqvar_freqs/xy-37/gnomad.exomes.r2.1.1.sites.chrY.vcf", + ]), + Some(&["tests/data/db/create/seqvar_freqs/xy-37/gnomad.genomes.r2.1.1.sites.chrX.vcf"]), + Some(Assembly::Grch37p10), + )?; + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("X"), + pos: 60003, + reference: String::from("A"), + alternative: String::from("G") + } + ); + assert_eq!(exomes, XyCounts::default()); + assert_eq!( + genomes, + XyCounts { + an: 2488, + ac_hom: 0, + ac_het: 10, + ac_hemi: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("X"), + pos: 60008, + reference: String::from("T"), + alternative: String::from("G") + } + ); + assert_eq!(exomes, XyCounts::default()); + assert_eq!( + genomes, + XyCounts { + an: 8576, + ac_hom: 0, + ac_het: 0, + ac_hemi: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("X"), + pos: 60009, + reference: String::from("A"), + alternative: String::from("G") + } + ); + assert_eq!(exomes, XyCounts::default()); + assert_eq!( + genomes, + XyCounts { + an: 3214, + ac_hom: 1, + ac_het: 3, + ac_hemi: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("X"), + pos: 200808, + reference: String::from("C"), + alternative: String::from("A") + } + ); + assert_eq!(genomes, XyCounts::default()); + assert_eq!( + exomes, + XyCounts { + an: 249706, + ac_hom: 0, + ac_het: 0, + ac_hemi: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("X"), + pos: 200808, + reference: String::from("C"), + alternative: String::from("G") + } + ); + assert_eq!(genomes, XyCounts::default()); + assert_eq!( + exomes, + XyCounts { + an: 249706, + ac_hom: 0, + ac_het: 1, + ac_hemi: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("X"), + pos: 200808, + reference: String::from("C"), + alternative: String::from("T") + } + ); + assert_eq!(genomes, XyCounts::default()); + assert_eq!( + exomes, + XyCounts { + an: 249706, + ac_hom: 0, + ac_het: 1, + ac_hemi: 0 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("Y"), + pos: 2654979, + reference: String::from("G"), + alternative: String::from("C") + } + ); + assert_eq!(genomes, XyCounts::default()); + assert_eq!( + exomes, + XyCounts { + an: 67174, + ac_hom: 0, + ac_het: 0, + ac_hemi: 2 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("Y"), + pos: 2655003, + reference: String::from("C"), + alternative: String::from("G") + } + ); + assert_eq!(genomes, XyCounts::default()); + assert_eq!( + exomes, + XyCounts { + an: 67694, + ac_hom: 0, + ac_het: 0, + ac_hemi: 1 + } + ); + called = true; + Ok(()) + })?; + assert!(res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|var, exomes, genomes| { + assert_eq!( + var, + VcfVar { + chrom: String::from("Y"), + pos: 2655009, + reference: String::from("A"), + alternative: String::from("G") + } + ); + assert_eq!(genomes, XyCounts::default()); + assert_eq!( + exomes, + XyCounts { + an: 67729, + ac_hom: 0, + ac_het: 0, + ac_hemi: 1 + } + ); + called = true; + Ok(()) + })?; + assert!(!res); + assert!(called); + } + + { + let mut called = false; + let res = reader.run(|_var, _exomes, _genomes| { + called = true; + Ok(()) + })?; + assert!(!res); + assert!(!called); + } + + Ok(()) + } +} diff --git a/src/db/create/seqvar_freqs/reading.rs b/src/db/create/seqvar_freqs/reading.rs new file mode 100644 index 00000000..810b0305 --- /dev/null +++ b/src/db/create/seqvar_freqs/reading.rs @@ -0,0 +1,311 @@ +//! Reading of variants. + +use std::{collections::HashMap, io::BufRead}; + +use hgvs::static_data::{Assembly, ASSEMBLY_INFOS}; +use noodles::vcf::{Header as VcfHeader, Record as VcfRecord}; +use noodles_util::variant::reader::{Builder as VariantReaderBuilder, Reader as VariantReader}; + +/// Provide mapping from contig names to numeric contig IDs. +pub struct ContigMap { + /// The corresponding assembly. + pub assembly: Assembly, + /// Map from contig name to contig ID. + pub name_map: HashMap, +} + +impl ContigMap { + /// Create a new mapping with the given assembly. + /// + /// NB: Grch37 does not include chrMT, Grch7p10 does. + pub fn new(assembly: Assembly) -> Self { + let mut name_map = HashMap::new(); + let info = &ASSEMBLY_INFOS[assembly]; + for (idx, seq) in info.sequences.iter().enumerate() { + name_map.insert(seq.name.clone(), idx); + for alias in seq.aliases.iter() { + name_map.insert(alias.clone(), idx); + } + } + + Self { assembly, name_map } + } + + pub fn chrom_to_idx(&self, chrom: &noodles::vcf::record::Chromosome) -> usize { + match chrom { + noodles::vcf::record::Chromosome::Name(s) + | noodles::vcf::record::Chromosome::Symbol(s) => *self + .name_map + .get(s) + .unwrap_or_else(|| panic!("Invalid contig {s}")), + } + } +} + +/// Read through multiple VCF files at the same time, using +pub struct MultiVcfReader { + /// The contig mapping to use. + contig_map: ContigMap, + /// One reader per file to read from. + #[allow(clippy::vec_box)] + readers: Vec>>>, + /// The headers as read from `readers`. + #[allow(clippy::vec_box)] + headers: Vec>, + /// The next record from each reader, if any. + nexts: Vec>, + /// The smallest from nexts. + next: usize, +} + +impl MultiVcfReader { + /// Create a new multi VCF reader. + pub fn new(paths: &[&str], initial_assembly: Option) -> Result { + let mut assembly: Option = None; + + let mut readers = Vec::new(); + let mut headers = Vec::new(); + let mut nexts = Vec::new(); + for path in paths { + tracing::trace!("Opening file {}", path); + let mut reader = Box::new(VariantReaderBuilder::default().build_from_path(path)?); + let header = Box::new(reader.as_mut().read_header()?); + assembly = Some(guess_assembly(header.as_ref(), true, initial_assembly)?); + nexts.push( + reader + .as_mut() + .records(header.as_ref()) + .next() + .transpose()?, + ); + readers.push(reader); + headers.push(header); + } + + let contig_map = ContigMap::new(assembly.unwrap()); + + Ok(Self { + contig_map, + readers, + headers, + nexts, + next: 0, + }) + } + + /// Obtain the number of input files. + pub fn input_count(&self) -> usize { + self.readers.len() + } + + /// Helper that returns integer pair for `VcfRecord`. + fn record_to_pair(&self, record: &VcfRecord) -> (usize, usize) { + let chrom = self.contig_map.chrom_to_idx(record.chromosome()); + let pos: usize = record.position().into(); + (chrom, pos) + } + + /// Return reference to next record from all input files. + pub fn peek(&self) -> (&Option, usize) { + (&self.nexts[self.next], self.next) + } + + /// Pop the next record and read next record from that file into reader. + pub fn pop(&mut self) -> Result<(Option, usize), anyhow::Error> { + let result = (self.nexts[self.next].clone(), self.next); + self.nexts[self.next] = self.readers[self.next] + .as_mut() + .records(&self.headers[self.next]) + .next() + .transpose()?; + + self.next = 0; + for i in 1..self.nexts.len() { + match (&self.nexts[self.next], &self.nexts[i]) { + (None, Some(_)) => self.next = i, + (Some(lhs), Some(rhs)) => { + let lhs = self.record_to_pair(lhs); + let rhs = self.record_to_pair(rhs); + if rhs < lhs { + self.next = i; + } + } + _ => (), // noop + } + } + + Ok(result) + } +} + +/// Canonical chromosome names. +/// +/// Note that the mitochondrial genome runs under two names. +const CANONICAL: &[&str] = &[ + "1", "2", "3", "4", "5", "6", "7", "8", "9", "10", "11", "12", "13", "14", "15", "16", "17", + "18", "19", "20", "21", "22", "X", "Y", "M", "MT", +]; + +/// Guess the assembly from the given header. +/// +/// If the header only contains chrM, for example, the result may be ambiguous. Use `ambiguous_ok` +/// to allow or disallow this. You can specify an initial value for the assembly to overcome +/// issues. If the result is incompatible with the `initial_assembly` then an error will +/// be returned. +pub fn guess_assembly( + vcf_header: &VcfHeader, + ambiguous_ok: bool, + initial_assembly: Option, +) -> Result { + let mut result = initial_assembly; + + for (assembly, info) in ASSEMBLY_INFOS.iter() { + let contig_map = ContigMap::new(assembly); + let mut lengths = HashMap::new(); + for seq in &info.sequences { + if CANONICAL.contains(&seq.name.as_str()) { + lengths.insert( + contig_map.name_map.get(seq.name.as_str()).unwrap(), + seq.length, + ); + } + } + + let mut incompatible = 0; + let mut compatible = 0; + for (name, data) in vcf_header.contigs() { + if let Some(length) = data.length() { + let idx = contig_map.name_map.get(name.as_ref()); + if let Some(idx) = idx { + let name = &info.sequences[*idx].name; + if CANONICAL.contains(&name.as_ref()) { + if *lengths.get(idx).unwrap() == length { + compatible += 1; + } else { + incompatible += 1; + } + } + } + } else { + tracing::warn!( + "Cannot guess assembly because no length for contig {}", + &name + ); + compatible = 0; + break; + } + } + + if compatible > 0 && incompatible == 0 { + if let Some(value) = result { + if !ambiguous_ok { + return Err(anyhow::anyhow!( + "Found two matching assemblies {:?} / {:?}", + value, + assembly + )); + } else if result != initial_assembly { + result = Some(assembly); + } + } else { + result = Some(assembly); + } + } else if initial_assembly.is_some() && assembly == initial_assembly.unwrap() { + return Err(anyhow::anyhow!( + "Incompatible with initial assembly {:?}", + result.unwrap() + )); + } + } + + if let Some(result) = result { + Ok(result) + } else { + Err(anyhow::anyhow!("No matching assembly found")) + } +} + +#[cfg(test)] +mod test { + use hgvs::static_data::Assembly; + + use super::*; + use noodles_util::variant::reader::Builder as VariantReaderBuilder; + + #[test] + fn guess_assembly_helix_chrmt_ambiguous_ok_initial_none() -> Result<(), anyhow::Error> { + let path = "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"; + let mut reader = VariantReaderBuilder::default().build_from_path(path)?; + let header = reader.read_header()?; + + let actual = guess_assembly(&header, true, None)?; + assert_eq!(actual, Assembly::Grch38); + + Ok(()) + } + + #[test] + fn guess_assembly_helix_chrmt_ambiguous_ok_initial_override() -> Result<(), anyhow::Error> { + let path = "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"; + let mut reader = VariantReaderBuilder::default().build_from_path(path)?; + let header = reader.read_header()?; + + let actual = guess_assembly(&header, true, Some(Assembly::Grch37p10))?; + assert_eq!(actual, Assembly::Grch37p10); + + Ok(()) + } + + #[test] + fn guess_assembly_helix_chrmt_ambiguous_ok_initial_override_fails() -> Result<(), anyhow::Error> + { + let path = "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"; + let mut reader = VariantReaderBuilder::default().build_from_path(path)?; + let header = reader.read_header()?; + + assert!(guess_assembly(&header, true, Some(Assembly::Grch37)).is_err()); + + Ok(()) + } + + #[test] + fn guess_assembly_helix_chrmt_ambiguous_fail() -> Result<(), anyhow::Error> { + let path = "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"; + let mut reader = VariantReaderBuilder::default().build_from_path(path)?; + let header = reader.read_header()?; + + assert!(guess_assembly(&header, false, None).is_err()); + + Ok(()) + } + + #[test] + fn contig_map_smoke() { + ContigMap::new(Assembly::Grch37p10); + ContigMap::new(Assembly::Grch38); + } + + #[test] + fn test_multivcf_reader() -> Result<(), anyhow::Error> { + let mut reader = MultiVcfReader::new( + &[ + "tests/data/db/create/seqvar_freqs/mt/gnomad.chrM.vcf", + "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf", + ], + Some(Assembly::Grch37p10), + )?; + + let top = reader.peek(); + assert_eq!(top.1, 0); + if let Some(record) = top.0 { + assert_eq!(Into::::into(record.position()), 3); + }; + + for _i in 0..6 { + assert!(reader.pop()?.0.is_some()); + } + assert!(reader.peek().0.is_none()); + + Ok(()) + } +} diff --git a/src/db/create/seqvar_freqs/serialized.rs b/src/db/create/seqvar_freqs/serialized.rs new file mode 100644 index 00000000..3cbb990c --- /dev/null +++ b/src/db/create/seqvar_freqs/serialized.rs @@ -0,0 +1,623 @@ +//! Serialization of population frequencies. + +/// Mitochondrial counts. +pub mod mt { + use std::str::FromStr; + + use byteorder::{ByteOrder, LittleEndian}; + use noodles::vcf::{ + self, + header::info::{key::Other as InfoOther, key::Standard as InfoStandard, Key as InfoKey}, + Record as VcfRecord, + }; + + /// Record type for storing AN, AC_hom, AC_het counts for chrMT. + #[derive(Default, Debug, PartialEq, Eq, Clone)] + pub struct Counts { + /// Total number of alleles. + pub an: u32, + /// Number of homoplasmic alleles. + pub ac_hom: u32, + /// Number of heteroplasmic alleles. + pub ac_het: u32, + } + + impl Counts { + /// Create from the given VCF record. + pub fn from_vcf(value: &VcfRecord) -> Self { + let ac_hom = match value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC_hom").expect("Invalid key: AC_hom?"), + )) + .unwrap() + .unwrap() + { + vcf::record::info::field::Value::Integer(ac_hom) => *ac_hom as u32, + _ => panic!("invalid type for AC_hom"), + }; + let ac_het = match value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC_het").expect("Invalid key: AC_het?"), + )) + .unwrap() + .unwrap() + { + vcf::record::info::field::Value::Integer(ac_het) => *ac_het as u32, + _ => panic!("invalid type for AC_het"), + }; + let an = match value + .info() + .get(&InfoKey::Standard(InfoStandard::TotalAlleleCount)) + .unwrap() + .unwrap() + { + vcf::record::info::field::Value::Integer(an) => *an as u32, + _ => panic!("invalid type for AN"), + }; + + Counts { ac_hom, ac_het, an } + } + + /// Read from buffer. + pub fn from_buf(buf: &[u8]) -> Self { + Self { + an: LittleEndian::read_u32(&buf[0..4]), + ac_hom: LittleEndian::read_u32(&buf[4..8]), + ac_het: LittleEndian::read_u32(&buf[8..12]), + } + } + + /// Write to buffer. + pub fn to_buf(&self, buf: &mut [u8]) { + LittleEndian::write_u32(&mut buf[0..4], self.an); + LittleEndian::write_u32(&mut buf[4..8], self.ac_hom); + LittleEndian::write_u32(&mut buf[8..12], self.ac_het); + } + } + + /// Record type for the "mitochondrial" column family. + pub struct Record { + /// Counts from gnomAD mtDNA. + pub gnomad_mtdna: Counts, + /// Counts from HelixMtDb. + pub helix_mtdb: Counts, + } + + impl Record { + /// Read from buffer. + pub fn from_buf(buf: &[u8]) -> Self { + Self { + gnomad_mtdna: Counts::from_buf(&buf[0..12]), + helix_mtdb: Counts::from_buf(&buf[12..24]), + } + } + + /// Write to buffer. + pub fn to_buf(&self, buf: &mut [u8]) { + self.gnomad_mtdna.to_buf(&mut buf[0..12]); + self.helix_mtdb.to_buf(&mut buf[12..24]); + } + } +} + +/// Autosomal counts. +pub mod auto { + use std::str::FromStr; + + use byteorder::{ByteOrder, LittleEndian}; + use noodles::vcf::{ + self, + header::info::{key::Other as InfoOther, key::Standard as InfoStandard, Key as InfoKey}, + Record as VcfRecord, + }; + + /// Record type for storing AN, AC_hom, AC_het counts for autosomal chromosomes. + #[derive(Default, Debug, PartialEq, Eq, Clone)] + pub struct Counts { + /// Total number of alleles. + pub an: u32, + /// Number of hom. alt. alleles. + pub ac_hom: u32, + /// Number of het. alt. alleles. + pub ac_het: u32, + } + + impl Counts { + /// Create from the given VCF record. + pub fn from_vcf(value: &VcfRecord) -> Self { + tracing::trace!("@ {:?}", &value); + + let ac = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC").expect("Invalid key: AC?"), + )) + .unwrap_or_default(); + let ac = if let Some(ac) = ac { + match ac { + vcf::record::info::field::Value::Integer(ac) => *ac as u32, + _ => panic!("invalid type for AC"), + } + } else { + 0 + }; + + let ac_hom = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("nhomalt").expect("Invalid key: nhomalt?"), + )) + .unwrap_or_default(); + let ac_hom = if let Some(ac_hom) = ac_hom { + match ac_hom { + noodles::vcf::record::info::field::Value::IntegerArray(nhomalt) => { + nhomalt[0].unwrap() as u32 + } + _ => panic!("invalid type for nhomalt"), + } + } else { + 0 + }; + + let an = match value + .info() + .get(&InfoKey::Standard(InfoStandard::TotalAlleleCount)) + .unwrap() + .unwrap() + { + vcf::record::info::field::Value::Integer(an) => *an as u32, + _ => panic!("invalid type for AN"), + }; + + Counts { + ac_hom, + ac_het: ac - 2 * ac_hom, + an, + } + } + + /// Read from buffer. + pub fn from_buf(buf: &[u8]) -> Self { + Self { + an: LittleEndian::read_u32(&buf[0..4]), + ac_hom: LittleEndian::read_u32(&buf[4..8]), + ac_het: LittleEndian::read_u32(&buf[8..12]), + } + } + + /// Write to buffer. + pub fn to_buf(&self, buf: &mut [u8]) { + LittleEndian::write_u32(&mut buf[0..4], self.an); + LittleEndian::write_u32(&mut buf[4..8], self.ac_hom); + LittleEndian::write_u32(&mut buf[8..12], self.ac_het); + } + } + + /// Record type for the "autosomal" column family. + pub struct Record { + /// Counts from gnomAD exomes. + pub gnomad_exomes: Counts, + /// Counts from gnomAD genomes. + pub gnomad_genomes: Counts, + } + + impl Record { + /// Read from buffer. + pub fn from_buf(buf: &[u8]) -> Self { + Self { + gnomad_exomes: Counts::from_buf(&buf[0..16]), + gnomad_genomes: Counts::from_buf(&buf[16..32]), + } + } + + /// Write to buffer. + pub fn to_buf(&self, buf: &mut [u8]) { + self.gnomad_exomes.to_buf(&mut buf[0..16]); + self.gnomad_genomes.to_buf(&mut buf[16..32]); + } + } +} + +/// Gonomosomal counts. +pub mod xy { + use std::str::FromStr; + + use byteorder::{ByteOrder, LittleEndian}; + use noodles::vcf::{ + self, + header::info::{key::Other as InfoOther, key::Standard as InfoStandard, Key as InfoKey}, + Record as VcfRecord, + }; + + /// Record type for storing AN, AC_hom, AC_het, AC_hemi counts for chrX/chrY. + #[derive(Default, Debug, PartialEq, Eq, Clone)] + pub struct Counts { + /// Total number of alleles. + pub an: u32, + /// Number of hom. alt. alleles. + pub ac_hom: u32, + /// Number of het. alt. alleles. + pub ac_het: u32, + /// Number of hemi. alt. alleles. + pub ac_hemi: u32, + } + + impl Counts { + /// Create from the given VCF record. + pub fn from_vcf(value: &VcfRecord) -> Self { + tracing::trace!("@ {:?}", &value); + + let ac_hom_xx = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("nhomalt_female").expect("Invalid key: nhomalt_female?"), + )) + .unwrap_or_else(|| { + value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("nhomalt_XX").expect("Invalid key: nhomalt_XX?"), + )) + .unwrap_or_default() + }); + let ac_hom_xx = if let Some(ac_hom_xx) = ac_hom_xx { + match ac_hom_xx { + noodles::vcf::record::info::field::Value::IntegerArray(ac_hom_xx) => { + ac_hom_xx[0].unwrap() as u32 + } + _ => panic!("invalid type for nhomalt_female/nhomalt_XX"), + } + } else { + 0 + }; + + let ac_xx = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC_female").expect("Invalid key: AC_female?"), + )) + .unwrap_or_else(|| { + value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC_XX").expect("Invalid key: AC_XX?"), + )) + .unwrap_or_default() + }); + let ac_xx = if let Some(ac_xx) = ac_xx { + match ac_xx { + noodles::vcf::record::info::field::Value::IntegerArray(ac_het) => { + ac_het[0].unwrap() as u32 + } + _ => panic!("invalid type for AC_female/AC_XX"), + } + } else { + 0 + }; + + let ac_hom_xy = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("nhomalt_male").expect("Invalid key: nhomalt_male?"), + )) + .unwrap_or_else(|| { + value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("nhomalt_XY").expect("Invalid key: nhomalt_XY?"), + )) + .unwrap_or_default() + }); + let ac_hom_xy = if let Some(ac_hom_xy) = ac_hom_xy { + match ac_hom_xy { + vcf::record::info::field::Value::IntegerArray(ac_hom_xx) => { + ac_hom_xx[0].unwrap() as u32 + } + _ => panic!("invalid type for nhomalt_male/nhomalt_XY"), + } + } else { + 0 + }; + + let ac_xy = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC_male").expect("Invalid key: AC_male/AC_XY?"), + )) + .unwrap_or_else(|| { + value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("AC_XY").expect("Invalid key: AC_XY?"), + )) + .unwrap_or_default() + }); + let ac_xy = if let Some(ac_xy) = ac_xy { + match ac_xy { + vcf::record::info::field::Value::IntegerArray(ac_het) => { + ac_het[0].unwrap() as u32 + } + _ => panic!("invalid type for AC_male/AC_XY"), + } + } else { + 0 + }; + + let nonpar = value + .info() + .get(&InfoKey::Other( + InfoOther::from_str("nonpar").expect("Invalid key: nonpar?"), + )) + .is_some(); + + let an = match value + .info() + .get(&InfoKey::Standard(InfoStandard::TotalAlleleCount)) + .unwrap() + .unwrap() + { + vcf::record::info::field::Value::Integer(an) => *an as u32, + _ => panic!("invalid type for AN"), + }; + + if nonpar { + // not in PAR + Counts { + ac_hom: ac_hom_xx, + ac_het: ac_xx - 2 * ac_hom_xx, + ac_hemi: ac_xy, + an, + } + } else { + // is in PAR + Counts { + ac_hom: ac_hom_xx + ac_hom_xy, + ac_het: ac_xx.saturating_sub(2 * ac_hom_xx + 2 * ac_hom_xy), + ac_hemi: 0, + an, + } + } + } + + /// Read from buffer. + pub fn from_buf(buf: &[u8]) -> Self { + Self { + an: LittleEndian::read_u32(&buf[0..4]), + ac_hom: LittleEndian::read_u32(&buf[4..8]), + ac_het: LittleEndian::read_u32(&buf[8..12]), + ac_hemi: LittleEndian::read_u32(&buf[12..16]), + } + } + + /// Write to buffer. + pub fn to_buf(&self, buf: &mut [u8]) { + LittleEndian::write_u32(&mut buf[0..4], self.an); + LittleEndian::write_u32(&mut buf[4..8], self.ac_hom); + LittleEndian::write_u32(&mut buf[8..12], self.ac_het); + LittleEndian::write_u32(&mut buf[12..16], self.ac_hemi); + } + } + + /// Record type for the "mitochondrial" column family. + pub struct Record { + /// Counts from gnomAD exomes. + pub gnomad_exomes: Counts, + /// Counts from gnomAD genomes. + pub gnomad_genomes: Counts, + } + + impl Record { + /// Read from buffer. + pub fn from_buf(buf: &[u8]) -> Self { + Self { + gnomad_exomes: Counts::from_buf(&buf[0..16]), + gnomad_genomes: Counts::from_buf(&buf[16..32]), + } + } + + /// Write to buffer. + pub fn to_buf(&self, buf: &mut [u8]) { + self.gnomad_exomes.to_buf(&mut buf[0..16]); + self.gnomad_genomes.to_buf(&mut buf[16..32]); + } + } +} + +/// Code for reading VCF. +pub mod vcf { + use std::ops::Deref; + + use noodles::vcf::{record::Chromosome, Record as VcfRecord}; + + use super::chrom_name_to_key; + + /// A chromosomal change `CHROM-POS-REF-ALT`. + #[derive(Debug, Default, PartialEq, Eq, PartialOrd, Ord)] + pub struct Var { + pub chrom: String, + pub pos: u32, + pub reference: String, + pub alternative: String, + } + + impl Var { + /// Create from the given VCF record. + pub fn from_vcf(value: &VcfRecord) -> Self { + let chrom = match value.chromosome() { + Chromosome::Name(name) | Chromosome::Symbol(name) => name.to_owned(), + }; + let pos: usize = value.position().into(); + let pos = pos as u32; + let reference = value.reference_bases().to_string(); + let alternative = value.alternate_bases().deref()[0].to_string(); + + Var { + chrom, + pos, + reference, + alternative, + } + } + } + + impl From for Vec { + fn from(val: Var) -> Self { + let mut result = Vec::new(); + + result.extend_from_slice(chrom_name_to_key(&val.chrom).as_bytes()); + result.extend_from_slice(&val.pos.to_be_bytes()); + result.extend_from_slice(val.reference.as_bytes()); + result.push(b'>'); + result.extend_from_slice(val.alternative.as_bytes()); + + result + } + } +} + +/// Convert chromosome to key in RocksDB. +pub fn chrom_name_to_key(name: &str) -> String { + let chrom = if let Some(stripped) = name.strip_prefix("chr") { + stripped + } else { + name + }; + let chrom = if chrom == "M" { + String::from("MT") + } else if "XY".contains(chrom) { + format!(" {chrom}") + } else { + String::from(chrom) + }; + assert!(chrom.len() <= 2); + assert!(!chrom.is_empty()); + if chrom.len() == 1 { + format!("0{chrom}") + } else { + chrom + } +} + +/// Convert from RocksDB chromosome key part to chromosome name. +pub fn chrom_key_to_name(key: &str) -> String { + assert!(key.len() == 2); + if key.starts_with('0') || key.starts_with(' ') { + key[1..].to_string() + } else { + key.to_string() + } +} + +#[cfg(test)] +mod test { + use pretty_assertions::assert_eq; + + use noodles_util::variant::reader::Builder as VariantReaderBuilder; + + use super::mt::Counts as MtCounts; + use super::vcf::Var as VcfVar; + use super::{chrom_key_to_name, chrom_name_to_key}; + + #[test] + fn test_chrom_name_to_key() { + assert_eq!(chrom_name_to_key("chr1"), "01"); + assert_eq!(chrom_name_to_key("chr21"), "21"); + assert_eq!(chrom_name_to_key("chrX"), " X"); + assert_eq!(chrom_name_to_key("chrY"), " Y"); + assert_eq!(chrom_name_to_key("chrM"), "MT"); + assert_eq!(chrom_name_to_key("chrMT"), "MT"); + + assert_eq!(chrom_name_to_key("1"), "01"); + assert_eq!(chrom_name_to_key("21"), "21"); + assert_eq!(chrom_name_to_key("X"), " X"); + assert_eq!(chrom_name_to_key("Y"), " Y"); + assert_eq!(chrom_name_to_key("M"), "MT"); + assert_eq!(chrom_name_to_key("MT"), "MT"); + } + + #[test] + fn test_chrom_key_to_name() { + assert_eq!(chrom_key_to_name("01"), "1"); + assert_eq!(chrom_key_to_name("21"), "21"); + assert_eq!(chrom_key_to_name(" X"), "X"); + assert_eq!(chrom_key_to_name(" Y"), "Y"); + assert_eq!(chrom_key_to_name("MT"), "MT"); + } + + #[test] + fn test_vcf_var_from_vcf() -> Result<(), anyhow::Error> { + let path = "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"; + let mut reader = VariantReaderBuilder::default().build_from_path(path)?; + let header = reader.read_header()?; + let mut records = reader.records(&header); + let vcf_record = records.next().transpose()?.unwrap(); + + let vcf_var = VcfVar::from_vcf(&vcf_record); + assert_eq!( + vcf_var, + VcfVar { + chrom: String::from("chrM"), + pos: 5, + reference: String::from("A"), + alternative: String::from("C") + } + ); + + Ok(()) + } + + #[test] + fn test_mtcounts_from_vcf() -> Result<(), anyhow::Error> { + let path = "tests/data/db/create/seqvar_freqs/mt/helix.chrM.vcf"; + let mut reader = VariantReaderBuilder::default().build_from_path(path)?; + let header = reader.read_header()?; + let mut records = reader.records(&header); + let vcf_record = records.next().transpose()?.unwrap(); + + let mt_counts = MtCounts::from_vcf(&vcf_record); + assert_eq!( + mt_counts, + MtCounts { + an: 196554, + ac_hom: 1, + ac_het: 0 + } + ); + + Ok(()) + } + + #[test] + fn test_vcf_var_lexicographic_sorting() { + let var1 = VcfVar { + chrom: String::from("11"), + pos: 10, + reference: String::from("T"), + alternative: String::from("TC"), + }; + let var2 = VcfVar { + chrom: String::from("11"), + pos: 10, + reference: String::from("T"), + alternative: String::from("TG"), + }; + let var3 = VcfVar { + chrom: String::from("11"), + pos: 10, + reference: String::from("TC"), + alternative: String::from("T"), + }; + let var4 = VcfVar { + chrom: String::from("11"), + pos: 10, + reference: String::from("TG"), + alternative: String::from("T"), + }; + + assert!(var1 < var2); + assert!(var2 < var3); + assert!(var3 < var4); + } +} diff --git a/src/main.rs b/src/main.rs index b43d802f..ce912221 100644 --- a/src/main.rs +++ b/src/main.rs @@ -85,7 +85,7 @@ fn main() -> Result<(), anyhow::Error> { // Install collector and go into sub commands. tracing::subscriber::with_default(collector, || { - tracing::info!("Mehari startup -- letting the camel from the leash..."); + tracing::info!("Mehari startup -- letting the dromedary from the leash..."); match &cli.command { Commands::Db(db) => match &db.command { diff --git a/tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf b/tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf new file mode 100644 index 00000000..d6afd393 --- /dev/null +++ b/tests/data/db/create/seqvar_freqs/12-37/gnomad.exomes.r2.1.1.sites.chr1.vcf @@ -0,0 +1,903 @@ +##fileformat=VCFv4.2 +##hailversion=0.2.7-fff3c70bdaf7 +##FILTER= +##FILTER= +##FILTER= +##FILTER= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= 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99_sas=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;controls_faf95=0.00000e+00;controls_faf99=0.00000e+00;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;vep=C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000423562|unprocessed_pseudogene||||||||||rs62635282|1|2165|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000438504|unprocessed_pseudogene||||||||||rs62635282|1|2165|-1||SNV|1|HGNC|38034|YES|||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene|2/6||ENST00000450305.2:n.68G>C||68|||||rs62635282|1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript|1/3||ENST00000456328.2:n.330G>C||330|||||rs62635282|1||1||SNV|1|HGNC|37102|YES|||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene||||||||||rs62635282|1|2206|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000515242|transcribed_unprocessed_pseudogene|1/3||ENST00000515242.2:n.327G>C||327|||||rs62635282|1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000518655|transcribed_unprocessed_pseudogene|1/4||ENST00000518655.2:n.325G>C||325|||||rs62635282|1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000538476|unprocessed_pseudogene||||||||||rs62635282|1|2213|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000541675|unprocessed_pseudogene||||||||||rs62635282|1|2165|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001576075|CTCF_binding_site||||||||||rs62635282|1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +1 12237 rs1324090652 G A 81.96 AC0 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+1 12259 rs1330604035 G C 37.42 AC0 AC=0;AN=2;AF=0.00000e+00;rf_tp_probability=3.76162e-01;FS=0.00000e+00;InbreedingCoeff=-1.41500e-01;MQ=2.00000e+01;QD=9.36000e+00;SOR=6.93000e-01;DP=18814;VQSLOD=2.24000e+00;VQSR_culprit=MQ;segdup;rf_negative_label;rf_label=FP;rf_train;variant_type=snv;allele_type=snv;n_alt_alleles=1;gq_hist_alt_bin_freq=0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=3978|2020|252|143|22|3|1|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_bin_freq=1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=125566|181|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_larger=0;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=0;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=0;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=0;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=0;non_topmed_AN_amr=0;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=0;non_cancer_nhomalt_asj_female=0;AC_raw=2;AN_raw=12838;AF_raw=1.55788e-04;nhomalt_raw=1;AC_fin_female=0;AN_fin_female=0;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=0;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=0;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=0;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=2;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=0;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=0;nhomalt_afr_male=0;AC_afr=0;AN_afr=0;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=0;controls_nhomalt_nfe_swe=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=0;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=0;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=0;non_cancer_AN_female=0;non_cancer_nhomalt_female=0;non_cancer_AC_nfe_onf=0;non_cancer_AN_nfe_onf=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=0;non_cancer_AN_male=2;non_cancer_AF_male=0.00000e+00;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=0;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=0;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=0;non_cancer_nhomalt_sas_female=0;AC_afr_female=0;AN_afr_female=0;nhomalt_afr_female=0;AC_sas=0;AN_sas=2;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=0;non_neuro_AN_female=0;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=0;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=0;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=0;AN_nfe_onf=0;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=0;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=0;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=0;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=0;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=0;nhomalt_nfe_female=0;AC_amr=0;AN_amr=0;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=0;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=2;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=0;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=0;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=0;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=0;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=0;non_neuro_nhomalt_afr=0;controls_AC_raw=2;controls_AN_raw=5786;controls_AF_raw=3.45662e-04;controls_nhomalt_raw=1;non_cancer_AC_eas=0;non_cancer_AN_eas=0;non_cancer_nhomalt_eas=0;non_cancer_AC_amr_female=0;non_cancer_AN_amr_female=0;non_cancer_nhomalt_amr_female=0;non_neuro_AC_nfe_swe=0;non_neuro_AN_nfe_swe=0;non_neuro_nhomalt_nfe_swe=0;controls_AC_male=0;controls_AN_male=0;controls_nhomalt_male=0;non_topmed_AC_male=0;non_topmed_AN_male=2;non_topmed_AF_male=0.00000e+00;non_topmed_nhomalt_male=0;controls_AC_eas_jpn=0;controls_AN_eas_jpn=0;controls_nhomalt_eas_jpn=0;controls_AC_nfe_female=0;controls_AN_nfe_female=0;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=0;non_neuro_AN_amr=0;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=0;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=0;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=0;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=0;non_neuro_nhomalt_fin=0;non_topmed_AC_sas=0;non_topmed_AN_sas=2;non_topmed_AF_sas=0.00000e+00;non_topmed_nhomalt_sas=0;non_cancer_AC_nfe_female=0;non_cancer_AN_nfe_female=0;non_cancer_nhomalt_nfe_female=0;AC_oth_female=0;AN_oth_female=0;nhomalt_oth_female=0;non_cancer_AC_asj=0;non_cancer_AN_asj=0;non_cancer_nhomalt_asj=0;AC_nfe_swe=0;AN_nfe_swe=0;nhomalt_nfe_swe=0;controls_AC_nfe=0;controls_AN_nfe=0;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=0;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=0;controls_nhomalt_asj=0;non_neuro_AC_amr_m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+2 41569 rs1387633455 G T 282.39 PASS AC=1;AN=248504;AF=4.02408e-06;rf_tp_probability=5.82280e-01;FS=4.15100e+00;InbreedingCoeff=1.00000e-03;MQ=6.00000e+01;MQRankSum=1.27000e+00;QD=1.04600e+01;ReadPosRankSum=1.16000e+00;SOR=1.91100e+00;VQSR_NEGATIVE_TRAIN_SITE;BaseQRankSum=6.53000e-01;ClippingRankSum=8.98000e-01;DP=7713039;VQSLOD=-1.62800e+00;VQSR_culprit=MQ;variant_type=snv;allele_type=snv;n_alt_alleles=1;pab_max=3.32306e-01;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1;gq_hist_all_bin_freq=173|92|45|112|294|315|912|1586|1300|3269|4339|2905|9803|2448|6806|3044|7958|1020|6503|72091;dp_hist_alt_bin_freq=0|0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=971|423|2781|8803|16385|14440|13417|13464|15537|14018|8140|4923|3312|2293|1488|1064|787|530|466|412;dp_hist_all_n_larger=2094;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=11402;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=2914;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3812;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=1;non_topmed_AN_amr=33952;non_topmed_AF_amr=2.94533e-05;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=4576;non_cancer_AF_asj_female=0.00000e+00;non_cancer_nhomalt_asj_female=0;AC_raw=1;AN_raw=250030;AF_raw=3.99952e-06;nhomalt_raw=0;AC_fin_female=0;AN_fin_female=10282;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=2608;non_cancer_AF_oth_female=0.00000e+00;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=2664;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=3068;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=22946;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=6146;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=6166;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=15454;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=12810;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=9272;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=19902;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=0;non_cancer_AN_female=105764;non_cancer_AF_female=0.00000e+00;non_cancer_nhomalt_female=0;non_cancer_AC_nfe_onf=0;non_cancer_AN_nfe_onf=24418;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=1;non_cancer_AN_male=128212;non_cancer_AF_male=7.79958e-06;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2812;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=9102;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=7450;non_cancer_AF_sas_female=0.00000e+00;non_cancer_nhomalt_sas_female=0;AC_afr_female=0;AN_afr_female=9288;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;AC_sas=0;AN_sas=30446;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=0;non_neuro_AN_female=93790;non_neuro_AF_female=0.00000e+00;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=7126;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=130;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=0;AN_nfe_onf=30750;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=1;non_cancer_AN_amr_male=13960;non_cancer_AF_amr_male=7.16332e-05;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=6874;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=35032;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=11226;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=49746;AF_nfe_female=0.00000e+00;nhomalt_nfe_female=0;AC_amr=1;AN_amr=34084;AF_amr=2.93393e-05;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=62526;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=30438;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=11222;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=10510;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=17936;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=39452;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=15418;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=0;controls_AN_ra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+2 41574 rs1442794729 C T 594.25 PASS AC=2;AN=248610;AF=8.04473e-06;rf_tp_probability=7.91953e-01;FS=7.85200e+00;InbreedingCoeff=1.40000e-03;MQ=6.00000e+01;MQRankSum=-6.71000e-01;QD=1.04300e+01;ReadPosRankSum=4.66000e-01;SOR=1.93000e-01;BaseQRankSum=2.31000e+00;ClippingRankSum=-1.07000e-01;DP=7794663;VQSLOD=-1.14600e-01;VQSR_culprit=MQ;variant_type=snv;allele_type=snv;n_alt_alleles=1;pab_max=1.00000e+00;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|2;gq_hist_all_bin_freq=179|83|46|109|270|302|865|1503|1243|3008|4161|2652|9248|2389|6434|2986|7716|904|6651|74255;dp_hist_alt_bin_freq=0|0|1|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=967|355|2449|7694|15597|13639|14186|15273|16012|14067|8141|4923|3312|2292|1488|1064|787|530|466|412;dp_hist_all_n_larger=2094;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|1|0|1|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=11394;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=2918;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3810;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=2;non_topmed_AN_amr=34030;non_topmed_AF_amr=5.87717e-05;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=4578;non_cancer_AF_asj_female=0.00000e+00;non_cancer_nhomalt_asj_female=0;AC_raw=2;AN_raw=250008;AF_raw=7.99974e-06;nhomalt_raw=0;AC_fin_female=0;AN_fin_female=10282;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=2608;non_cancer_AF_oth_female=0.00000e+00;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=2664;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=3072;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=22930;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=6152;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=6172;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=15474;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=12806;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=9286;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=1;non_topmed_AN_amr_female=19944;non_topmed_AF_amr_female=5.01404e-05;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=1;non_cancer_AN_female=105834;non_cancer_AF_female=9.44876e-06;non_cancer_nhomalt_female=0;non_cancer_AC_nfe_onf=0;non_cancer_AN_nfe_onf=24406;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=1;non_cancer_AN_male=128248;non_cancer_AF_male=7.79739e-06;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2812;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=9104;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=7462;non_cancer_AF_sas_female=0.00000e+00;non_cancer_nhomalt_sas_female=0;AC_afr_female=0;AN_afr_female=9302;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;AC_sas=0;AN_sas=30442;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=1;non_neuro_AN_female=93856;non_neuro_AF_female=1.06546e-05;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=7134;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=130;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=0;AN_nfe_onf=30738;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=1;non_cancer_AN_amr_male=13996;non_cancer_AF_amr_male=7.14490e-05;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=6880;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=35056;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=11230;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=49744;AF_nfe_female=0.00000e+00;nhomalt_nfe_female=0;AC_amr=2;AN_amr=34162;AF_amr=5.85446e-05;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=62530;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=30434;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=11226;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=10502;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=17938;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=39452;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=15438;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=2;controls_AN_raw=108816;controls_AF_raw=1.83797e-05;controls_nhomalt_raw=0;non_cancer_AC_eas=0;non_cancer_AN_eas=17244;non_cancer_AF_eas=0.00000e+00;non_cancer_nhomalt_eas=0;non_cancer_AC_amr_female=1;non_cancer_AN_amr_female=19834;non_cancer_AF_amr_female=5.04185e-05;non_cancer_nhomalt_amr_female=0;non_neuro_AC_nfe_swe=0;non_neuro_AN_nfe_swe=14746;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_nhomalt_nfe_swe=0;controls_AC_male=1;controls_AN_male=57534;controls_AF_male=1.73810e-05;controls_nhomalt_male=0;non_topmed_AC_male=1;non_topmed_AN_male=132552;non_topmed_AF_male=7.54421e-06;non_topmed_nhomalt_male=0;controls_AC_eas_jpn=0;controls_AN_eas_jpn=94;controls_AF_eas_jpn=0.00000e+00;controls_nhomalt_eas_jpn=0;controls_AC_nfe_female=0;controls_AN_nfe_female=19018;controls_AF_nfe_female=0.00000e+00;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=2;non_neuro_AN_amr=30114;non_neuro_AF_amr=6.64143e-05;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=6622;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=5172;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=23512;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=16606;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;non_topmed_AC_sas=0;non_topmed_AN_sas=30442;non_topmed_AF_sas=0.00000e+00;non_topmed_nhomalt_sas=0;non_cancer_AC_nfe_female=0;non_cancer_AN_nfe_female=43886;non_cancer_AF_nfe_female=0.00000e+00;non_cancer_nhomalt_nfe_female=0;AC_oth_female=0;AN_oth_female=2854;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;non_cancer_AC_asj=0;non_cancer_AN_asj=9546;non_cancer_AF_asj=0.00000e+00;non_cancer_nhomalt_asj=0;AC_nfe_swe=0;AN_nfe_swe=26100;AF_nfe_swe=0.00000e+00;nhomalt_nfe_swe=0;controls_AC_nfe=0;controls_AN_nfe=42530;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=972;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=2314;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=1;non_neuro_AN_amr_male=12086;non_neuro_AF_amr_male=8.27404e-05;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=14342;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=0;AN_nfe_nwe=41876;AF_nfe_nwe=0.00000e+00;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=4688;controls_AF_nfe_seu=0.00000e+00;controls_nhomalt_nfe_seu=0;controls_AC_sas_female=0;controls_AN_sas_female=4196;controls_AF_sas_female=0.00000e+00;controls_nhomalt_sas_female=0;non_neuro_AC_amr_female=1;non_neuro_AN_amr_female=18028;non_neuro_AF_amr_female=5.54693e-05;non_neuro_nhomalt_amr_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AN_eas_jpn=104;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_nhomalt_eas_jpn=0;non_neuro_AC_nfe_onf=0;non_neuro_AN_nfe_onf=27586;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=8830;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;AC_eas_jpn=0;AN_eas_jpn=132;AF_eas_jpn=0.00000e+00;nhomalt_eas_jpn=0;non_cancer_AC_afr_male=0;non_cancer_AN_afr_male=5658;non_cancer_AF_afr_male=0.00000e+00;non_cancer_nhomalt_afr_male=0;non_cancer_AC_afr=0;non_cancer_AN_afr=14122;non_cancer_AF_afr=0.00000e+00;non_cancer_nhomalt_afr=0;controls_AC_amr_female=1;controls_AN_amr_female=10090;controls_AF_amr_female=9.91080e-05;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=9040;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=1;AN_female=113698;AF_female=8.79523e-06;nhomalt_female=0;non_neuro_AC_nfe_bgr=0;non_neuro_AN_nfe_bgr=446;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_nhomalt_nfe_bgr=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=2436;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=238;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=0;non_topmed_AN_nfe_nwe=40760;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=1;non_topmed_AN_amr_male=14086;non_topmed_AF_amr_male=7.09925e-05;non_topmed_nhomalt_amr_male=0;non_cancer_AC_amr=2;non_cancer_AN_amr=33830;non_cancer_AF_amr=5.91191e-05;non_cancer_nhomalt_amr=0;non_topmed_AC_nfe_swe=0;non_topmed_AN_nfe_swe=26038;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_nhomalt_nfe_swe=0;non_topmed_AC_nfe_onf=0;non_topmed_AN_nfe_onf=29942;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_kor=0;controls_AN_eas_kor=1886;controls_AF_eas_kor=0.00000e+00;controls_nhomalt_eas_kor=0;non_topmed_AC_eas_oea=0;non_topmed_AN_eas_oea=13990;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_nhomalt_eas_oea=0;controls_AC_eas_male=0;controls_AN_eas_male=4034;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=906;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=2;non_topme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00;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=0;non_topmed_AN_oth=858;non_topmed_AF_oth=0.00000e+00;non_topmed_nhomalt_oth=0;non_topmed_AC_fin_female=1;non_topmed_AN_fin_female=1436;non_topmed_AF_fin_female=6.96379e-04;non_topmed_nhomalt_fin_female=0;AC_oth=0;AN_oth=920;AF_oth=0.00000e+00;nhomalt_oth=0;non_neuro_AC_nfe_male=0;non_neuro_AN_nfe_male=6428;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_nhomalt_nfe_male=0;controls_AC_female=0;controls_AN_female=4168;controls_AF_female=0.00000e+00;controls_nhomalt_female=0;non_topmed_AC_fin=1;non_topmed_AN_fin=2664;non_topmed_AF_fin=3.75375e-04;non_topmed_nhomalt_fin=0;non_topmed_AC_nfe_female=0;non_topmed_AN_nfe_female=4774;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_nhomalt_nfe_female=0;controls_AC_asj_male=0;controls_AN_asj_male=12;controls_AF_asj_male=0.00000e+00;controls_nhomalt_asj_male=0;non_topmed_AC_asj_male=0;non_topmed_AN_asj_male=70;non_topmed_AF_asj_male=0.00000e+00;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=0;non_neuro_AN_oth=618;non_neuro_AF_oth=0.00000e+00;non_neuro_nhomalt_oth=0;AC_male=0;AN_male=14650;AF_male=0.00000e+00;nhomalt_male=0;controls_AC_fin_female=0;controls_AN_fin_female=440;controls_AF_fin_female=0.00000e+00;controls_nhomalt_fin_female=0;controls_AC_asj_female=0;controls_AN_asj_female=24;controls_AF_asj_female=0.00000e+00;controls_nhomalt_asj_female=0;AC_amr_male=0;AN_amr_male=352;AF_amr_male=0.00000e+00;nhomalt_amr_male=0;AC_amr_female=0;AN_amr_female=328;AF_amr_female=0.00000e+00;nhomalt_amr_female=0;AC_oth_male=0;AN_oth_male=452;AF_oth_male=0.00000e+00;nhomalt_oth_male=0;non_neuro_AC_nfe_seu=0;non_neuro_AN_nfe_seu=54;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_nhomalt_nfe_seu=0;non_topmed_AC_afr_female=0;non_topmed_AN_afr_female=3046;non_topmed_AF_afr_female=0.00000e+00;non_topmed_nhomalt_afr_female=0;non_topmed_AC_afr=0;non_topmed_AN_afr=7148;non_topmed_AF_afr=0.00000e+00;non_topmed_nhomalt_afr=0;controls_AC=0;controls_AN=9004;controls_AF=0.00000e+00;controls_nhomalt=0;non_neuro_AC_oth_female=0;non_neuro_AN_oth_female=306;non_neuro_AF_oth_female=0.00000e+00;non_neuro_nhomalt_oth_female=0;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;faf95_afr=0.00000e+00;faf99_afr=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf99_afr=0.00000e+00;faf95_amr=0.00000e+00;faf99_amr=0.00000e+00;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=0.00000e+00;faf99=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf99_nfe=0.00000e+00;non_topmed_faf95=2.00000e-06;non_topmed_faf99=2.00000e-06;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf95=0.00000e+00;non_neuro_faf99=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf99_nfe=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf99_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;controls_faf95=0.00000e+00;controls_faf99=0.00000e+00;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;vep=AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000423562|unprocessed_pseudogene|||||||||||1|4295|-1||insertion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000438504|unprocessed_pseudogene|||||||||||1|4295|-1||insertion|1|HGNC|38034|YES|||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene|||||||||||1|1942|1||insertion|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript|||||||||||1|1801|1||insertion|1|HGNC|37102|YES|||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene|||||||||||1|4336|-1||insertion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000515242|transcribed_unprocessed_pseudogene|||||||||||1|1804|1||insertion|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000518655|transcribed_unprocessed_pseudogene|||||||||||1|1806|1||insertion|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000538476|unprocessed_pseudogene|||||||||||1|4343|-1||insertion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000541675|unprocessed_pseudogene|||||||||||1|4295|-1||insertion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,AACCCTAACCCTAACCCTAACCCTAACCCTAACCCTAACCC|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001576074|CTCF_binding_site|||||||||||1||||insertion|1|||||||||||||||||||||||||||||||||||||||||||| +1 10108 rs62651026 CAACCCT C 46514.32 RF AC=2;AN=1982;AF=1.00908e-03;rf_tp_probability=5.09631e-02;FS=1.90100e+00;InbreedingCoeff=-2.99800e-01;MQ=3.95600e+01;MQRankSum=2.08000e-01;QD=3.42400e+01;ReadPosRankSum=1.27000e+00;SOR=8.55000e-01;BaseQRankSum=-7.62000e-01;ClippingRankSum=-2.54000e-01;DP=2147991;VQSLOD=-1.26600e+01;VQSR_culprit=DP;segdup;lcr;variant_type=indel;allele_type=del;n_alt_alleles=1;pab_max=1.79688e-01;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|1;gq_hist_all_bin_freq=14116|107|108|94|86|90|88|83|56|64|76|43|58|32|33|35|51|27|38|131;dp_hist_alt_bin_freq=0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=2|4|17|26|34|58|129|205|329|593|770|987|1155|1239|1324|1204|1051|941|816|720;dp_hist_all_n_larger=4104;ab_hist_alt_bin_freq=0|0|0|0|2|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=36;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=1;controls_AN_afr_male=52;controls_AF_afr_male=1.92308e-02;controls_nhomalt_afr_male=0;non_topmed_AC_amr=0;non_topmed_AN_amr=24;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;AC_raw=2;AN_raw=30832;AF_raw=6.48677e-05;nhomalt_raw=0;AC_fin_female=1;AN_fin_female=30;AF_fin_female=3.33333e-02;nhomalt_fin_female=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=8;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;non_neuro_AC_afr_male=1;non_neuro_AN_afr_male=56;non_neuro_AF_afr_male=1.78571e-02;non_neuro_nhomalt_afr_male=0;AC_afr_male=1;AN_afr_male=166;AF_afr_male=6.02410e-03;nhomalt_afr_male=0;AC_afr=1;AN_afr=282;AF_afr=3.54610e-03;nhomalt_afr=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=64;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=12;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=50;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=18;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;AC_afr_female=0;AN_afr_female=116;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;non_neuro_AC_female=1;non_neuro_AN_female=698;non_neuro_AF_female=1.43266e-03;non_neuro_nhomalt_female=0;controls_AC_afr=1;controls_AN_afr=78;controls_AF_afr=1.28205e-02;controls_nhomalt_afr=0;AC_nfe_onf=0;AN_nfe_onf=254;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;controls_AC_fin_male=0;controls_AN_fin_male=6;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=474;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=14;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=648;AF_nfe_female=0.00000e+00;nhomalt_nfe_female=0;AC_amr=0;AN_amr=28;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=582;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;AC_eas=0;AN_eas=56;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=556;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=1;non_neuro_AN_afr=120;non_neuro_AF_afr=8.33333e-03;non_neuro_nhomalt_afr=0;controls_AC_raw=2;controls_AN_raw=10614;controls_AF_raw=1.88430e-04;controls_nhomalt_raw=0;controls_AC_male=1;controls_AN_male=426;controls_AF_male=2.34742e-03;controls_nhomalt_male=0;non_topmed_AC_male=1;non_topmed_AN_male=846;non_topmed_AF_male=1.18203e-03;non_topmed_nhomalt_male=0;controls_AC_nfe_female=0;controls_AN_nfe_female=330;controls_AF_nfe_female=0.00000e+00;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=0;non_neuro_AN_amr=18;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=18;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=18;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=346;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=1;non_neuro_AN_fin=20;non_neuro_AF_fin=5.00000e-02;non_neuro_nhomalt_fin=0;AC_oth_female=0;AN_oth_female=50;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;controls_AC_nfe=0;controls_AN_nfe=676;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=22;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=4;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=4;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=54;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=0;AN_nfe_nwe=612;AF_nfe_nwe=0.00000e+00;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=20;controls_AF_nfe_seu=0.00000e+00;controls_nhomalt_nfe_seu=0;non_neuro_AC_amr_female=0;non_neuro_AN_amr_female=14;non_neuro_AF_amr_female=0.00000e+00;non_neuro_nhomalt_amr_female=0;non_neuro_AC_nfe_onf=0;non_neuro_AN_nfe_onf=158;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=38;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;controls_AC_amr_female=0;controls_AN_amr_female=0;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=6;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=1;AN_female=890;AF_female=1.12360e-03;nhomalt_female=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=12;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=548;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=0;non_topmed_AN_nfe_nwe=378;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=0;non_topmed_AN_amr_male=12;non_topmed_AF_amr_male=0.00000e+00;non_topmed_nhomalt_amr_male=0;non_topmed_AC_nfe_onf=0;non_topmed_AN_nfe_onf=216;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_male=0;controls_AN_eas_male=14;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=8;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=2;non_topmed_AN=1682;non_topmed_AF=1.18906e-03;non_topmed_nhomalt=0;controls_AC_fin=1;controls_AN_fin=20;controls_AF_fin=5.00000e-02;controls_nhomalt_fin=0;non_neuro_AC_nfe=0;non_neuro_AN_nfe=1182;non_neuro_AF_nfe=0.00000e+00;non_neuro_nhomalt_nfe=0;non_neuro_AC_fin_female=1;non_neuro_AN_fin_female=14;non_neuro_AF_fin_female=7.14286e-02;non_neuro_nhomalt_fin_female=0;non_topmed_AC_nfe_seu=0;non_topmed_AN_nfe_seu=36;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=8;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=0;non_topmed_AN_asj=18;non_topmed_AF_asj=0.00000e+00;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=0;controls_AN_nfe_onf=74;controls_AF_nfe_onf=0.00000e+00;controls_nhomalt_nfe_onf=0;non_neuro_AC=2;non_neuro_AN=1454;non_neuro_AF=1.37552e-03;non_neuro_nhomalt=0;non_topmed_AC_nfe=0;non_topmed_AN_nfe=1178;non_topmed_AF_nfe=0.00000e+00;non_topmed_nhomalt_nfe=0;non_topmed_AC_raw=2;non_topmed_AN_raw=26050;non_topmed_AF_raw=7.67754e-05;non_topmed_nhomalt_raw=0;non_neuro_AC_nfe_est=0;non_neuro_AN_nfe_est=532;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=0;non_topmed_AN_oth_male=38;non_topmed_AF_oth_male=0.00000e+00;non_topmed_nhomalt_oth_male=0;AC_nfe_est=0;AN_nfe_est=550;AF_nfe_est=0.00000e+00;nhomalt_nfe_est=0;non_topmed_AC_afr_male=1;non_topmed_AN_afr_male=158;non_topmed_AF_afr_male=6.32911e-03;non_topmed_nhomalt_afr_male=0;AC_eas_male=0;AN_eas_male=38;AF_eas_male=0.00000e+00;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=22;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=38;non_neuro_AF_eas_male=0.00000e+00;non_neuro_nhomalt_eas_male=0;non_neuro_AC_asj_male=0;non_neuro_AN_asj_male=14;non_neuro_AF_asj_male=0.00000e+00;non_neuro_nhomalt_asj_male=0;controls_AC_oth=0;controls_AN_oth=30;controls_AF_oth=0.00000e+00;controls_nhomalt_oth=0;AC_nfe=0;AN_nfe=1452;AF_nfe=0.00000e+00;nhomalt_nfe=0;non_topmed_AC_female=1;non_topmed_AN_female=836;non_topmed_AF_female=1.19617e-03;non_topmed_nhomalt_female=0;non_neuro_AC_asj=0;non_neuro_AN_asj=22;non_neuro_AF_asj=0.00000e+00;non_neuro_nhomalt_asj=0;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=18;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=2;non_neuro_AN_raw=20966;non_neuro_AF_raw=9.53925e-05;non_neuro_nhomalt_raw=0;non_topmed_AC_eas=0;non_topmed_AN_eas=56;non_topmed_AF_eas=0.00000e+00;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=0;non_topmed_AN_fin_male=14;non_topmed_AF_fin_male=0.00000e+00;non_topmed_nhomalt_fin_male=0;AC_fin=1;AN_fin=44;AF_fin=2.27273e-02;nhomalt_fin=0;AC_nfe_male=0;AN_nfe_male=804;AF_nfe_male=0.00000e+00;nhomalt_nfe_male=0;controls_AC_amr_male=0;controls_AN_amr_male=0;controls_nhomalt_amr_male=0;controls_AC_afr_female=0;controls_AN_afr_female=26;controls_AF_afr_female=0.00000e+00;controls_nhomalt_afr_female=0;controls_AC_amr=0;controls_AN_amr=0;controls_nhomalt_amr=0;AC_asj_female=0;AN_asj_female=14;AF_asj_female=0.00000e+00;nhomalt_asj_female=0;non_neuro_AC_eas=0;non_neuro_AN_eas=56;non_neuro_AF_eas=0.00000e+00;non_neuro_nhomalt_eas=0;non_neuro_AC_male=1;non_neuro_AN_male=756;non_neuro_AF_male=1.32275e-03;non_neuro_nhomalt_male=0;AC_asj=0;AN_asj=32;AF_asj=0.00000e+00;nhomalt_asj=0;controls_AC_nfe_est=0;controls_AN_nfe_est=528;controls_AF_nfe_est=0.00000e+00;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=0;non_topmed_AN_asj_female=14;non_topmed_AF_asj_female=0.00000e+00;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=0;non_topmed_AN_oth=88;non_topmed_AF_oth=0.00000e+00;non_topmed_nhomalt_oth=0;non_topmed_AC_fin_female=1;non_topmed_AN_fin_female=30;non_topmed_AF_fin_female=3.33333e-02;non_topmed_nhomalt_fin_female=0;AC_oth=0;AN_oth=88;AF_oth=0.00000e+00;nhomalt_oth=0;non_neuro_AC_nfe_male=0;non_neuro_AN_nfe_male=626;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_nhomalt_nfe_male=0;controls_AC_female=1;controls_AN_female=404;controls_AF_female=2.47525e-03;controls_nhomalt_female=0;non_topmed_AC_fin=1;non_topmed_AN_fin=44;non_topmed_AF_fin=2.27273e-02;non_topmed_nhomalt_fin=0;non_topmed_AC_nfe_female=0;non_topmed_AN_nfe_female=596;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_nhomalt_nfe_female=0;controls_AC_asj_male=0;controls_AN_asj_male=0;controls_nhomalt_asj_male=0;non_topmed_AC_asj_male=0;non_topmed_AN_asj_male=4;non_topmed_AF_asj_male=0.00000e+00;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=0;non_neuro_AN_oth=36;non_neuro_AF_oth=0.00000e+00;non_neuro_nhomalt_oth=0;AC_male=1;AN_male=1092;AF_male=9.15751e-04;nhomalt_male=0;controls_AC_fin_female=1;controls_AN_fin_female=14;controls_AF_fin_female=7.14286e-02;controls_nhomalt_fin_female=0;controls_AC_asj_female=0;controls_AN_asj_female=4;controls_AF_asj_female=0.00000e+00;controls_nhomalt_asj_female=0;AC_amr_male=0;AN_amr_male=14;AF_amr_male=0.00000e+00;nhomalt_amr_male=0;AC_amr_female=0;AN_amr_female=14;AF_amr_female=0.00000e+00;nhomalt_amr_female=0;AC_oth_male=0;AN_oth_male=38;AF_oth_male=0.00000e+00;nhomalt_oth_male=0;non_neuro_AC_nfe_seu=0;non_neuro_AN_nfe_seu=18;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_nhomalt_nfe_seu=0;non_topmed_AC_afr_female=0;non_topmed_AN_afr_female=116;non_topmed_AF_afr_female=0.00000e+00;non_topmed_nhomalt_afr_female=0;non_topmed_AC_afr=1;non_topmed_AN_afr=274;non_topmed_AF_afr=3.64964e-03;non_topmed_nhomalt_afr=0;controls_AC=2;controls_AN=830;controls_AF=2.40964e-03;controls_nhomalt=0;non_neuro_AC_oth_female=0;non_neuro_AN_oth_female=24;non_neuro_AF_oth_female=0.00000e+00;non_neuro_nhomalt_oth_female=0;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;faf95_afr=0.00000e+00;faf99_afr=0.00000e+00;controls_faf95_afr=6.57000e-04;controls_faf99_afr=6.57000e-04;faf95_amr=0.00000e+00;faf99_amr=0.00000e+00;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=1.78880e-04;faf99=1.78810e-04;non_neuro_faf95_afr=4.27000e-04;non_neuro_faf99_afr=4.27000e-04;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf99_nfe=0.00000e+00;non_topmed_faf95=2.10680e-04;non_topmed_faf99=2.10430e-04;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf95=2.43440e-04;non_neuro_faf99=2.44400e-04;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf99_nfe=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf99_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_topmed_faf95_afr=1.87000e-04;non_topmed_faf99_afr=1.87000e-04;controls_faf95=4.28030e-04;controls_faf99=4.27370e-04;controls_popmax=afr;controls_AC_popmax=1;controls_AN_popmax=78;controls_AF_popmax=1.28205e-02;controls_nhomalt_popmax=0;popmax=afr;AC_popmax=1;AN_popmax=282;AF_popmax=3.54610e-03;nhomalt_popmax=0;age_hist_het_bin_freq=0|0|1|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;non_neuro_popmax=afr;non_neuro_AC_popmax=1;non_neuro_AN_popmax=120;non_neuro_AF_popmax=8.33333e-03;non_neuro_nhomalt_popmax=0;non_topmed_popmax=afr;non_topmed_AC_popmax=1;non_topmed_AN_popmax=274;non_topmed_AF_popmax=3.64964e-03;non_topmed_nhomalt_popmax=0;vep=-|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000423562|unprocessed_pseudogene|||||||||||1|4249|-1||deletion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,-|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000438504|unprocessed_pseudogene|||||||||||1|4249|-1||deletion|1|HGNC|38034|YES|||||||||||||||||||||||||||||||||||||||||,-|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene|||||||||||1|1896|1||deletion|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,-|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript|||||||||||1|1755|1||deletion|1|HGNC|37102|YES|||||||||||||||||||||||||||||||||||||||||,-|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene|||||||||||1|4290|-1||deletion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,-|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000515242|transcribed_unprocessed_pseudogene|||||||||||1|1758|1||deletion|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,-|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000518655|transcribed_unprocessed_pseudogene|||||||||||1|1760|1||deletion|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,-|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000538476|unprocessed_pseudogene|||||||||||1|4297|-1||deletion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,-|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000541675|unprocessed_pseudogene|||||||||||1|4249|-1||deletion|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,-|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001576074|CTCF_binding_site|||||||||||1||||deletion|1|||||||||||||||||||||||||||||||||||||||||||| +1 10109 rs376007522 AACCCT A 89837.27 RF AC=19;AN=296;AF=6.41892e-02;rf_tp_probability=4.41212e-03;FS=5.75990e+01;InbreedingCoeff=1.08700e-01;MQ=3.69700e+01;MQRankSum=-6.93000e-01;QD=3.06300e+01;ReadPosRankSum=-9.31000e-01;SOR=4.87500e+00;BaseQRankSum=-2.10300e+00;ClippingRankSum=-2.75000e-01;DP=2134891;VQSLOD=-3.14500e+01;VQSR_culprit=DP;segdup;lcr;variant_type=indel;allele_type=del;n_alt_alleles=1;has_star;pab_max=1.00000e+00;gq_hist_alt_bin_freq=0|4|2|1|1|7|2|2|1|1|0|1|1|1|1|0|1|0|0|5;gq_hist_all_bin_freq=14814|196|99|120|70|27|18|7|4|6|3|2|1|2|2|0|1|0|0|11;dp_hist_alt_bin_freq=0|1|1|4|7|7|4|3|2|2|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=2|6|18|34|45|72|136|232|356|629|774|1005|1168|1211|1307|1178|1036|922|801|719;dp_hist_all_n_larger=4057;ab_hist_alt_bin_freq=0|0|0|6|5|6|5|4|2|1|0|1|1|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=0;nhomalt_nfe_seu=0;controls_AC_afr_male=3;controls_AN_afr_male=18;controls_AF_afr_male=1.66667e-01;controls_nhomalt_afr_male=0;non_topmed_AC_amr=1;non_topmed_AN_amr=10;non_topmed_AF_amr=1.00000e-01;non_topmed_nhomalt_amr=0;AC_raw=31;AN_raw=30766;AF_raw=1.00761e-03;nhomalt_raw=0;AC_fin_female=1;AN_fin_female=18;AF_fin_female=5.55556e-02;nhomalt_fin_female=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=0;non_neuro_nhomalt_asj_female=0;non_neuro_AC_afr_male=3;non_neuro_AN_afr_male=18;non_neuro_AF_afr_male=1.66667e-01;non_neuro_nhomalt_afr_male=0;AC_afr_male=5;AN_afr_male=40;AF_afr_male=1.25000e-01;nhomalt_afr_male=0;AC_afr=6;AN_afr=74;AF_afr=8.10811e-02;nhomalt_afr=0;non_neuro_AC_afr_female=1;non_neuro_AN_afr_female=26;non_neuro_AF_afr_female=3.84615e-02;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=8;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_topmed_AC_oth_female=1;non_topmed_AN_oth_female=4;non_topmed_AF_oth_female=2.50000e-01;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=6;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;AC_afr_female=1;AN_afr_female=34;AF_afr_female=2.94118e-02;nhomalt_afr_female=0;non_neuro_AC_female=6;non_neuro_AN_female=122;non_neuro_AF_female=4.91803e-02;non_neuro_nhomalt_female=0;controls_AC_afr=4;controls_AN_afr=32;controls_AF_afr=1.25000e-01;controls_nhomalt_afr=0;AC_nfe_onf=2;AN_nfe_onf=18;AF_nfe_onf=1.11111e-01;nhomalt_nfe_onf=0;controls_AC_fin_male=0;controls_AN_fin_male=2;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=3;non_neuro_AN_nfe_nwe=76;non_neuro_AF_nfe_nwe=3.94737e-02;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=1;AN_fin_male=16;AF_fin_male=6.25000e-02;nhomalt_fin_male=0;AC_nfe_female=5;AN_nfe_female=74;AF_nfe_female=6.75676e-02;nhomalt_nfe_female=0;AC_amr=1;AN_amr=10;AF_amr=1.00000e-01;nhomalt_amr=0;non_topmed_AC_nfe_male=2;non_topmed_AN_nfe_male=44;non_topmed_AF_nfe_male=4.54545e-02;non_topmed_nhomalt_nfe_male=0;AC_eas=0;AN_eas=10;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=4;non_neuro_AN_nfe_female=68;non_neuro_AF_nfe_female=5.88235e-02;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=4;non_neuro_AN_afr=44;non_neuro_AF_afr=9.09091e-02;non_neuro_nhomalt_afr=0;controls_AC_raw=14;controls_AN_raw=10564;controls_AF_raw=1.32526e-03;controls_nhomalt_raw=0;controls_AC_male=4;controls_AN_male=54;controls_AF_male=7.40741e-02;controls_nhomalt_male=0;non_topmed_AC_male=9;non_topmed_AN_male=110;non_topmed_AF_male=8.18182e-02;non_topmed_nhomalt_male=0;controls_AC_nfe_female=3;controls_AN_nfe_female=36;controls_AF_nfe_female=8.33333e-02;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=1;non_neuro_AN_amr=10;non_neuro_AF_amr=1.00000e-01;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=6;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=0;nhomalt_asj_male=0;controls_AC_nfe_male=1;controls_AN_nfe_male=32;controls_AF_nfe_male=3.12500e-02;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=12;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;AC_oth_female=2;AN_oth_female=6;AF_oth_female=3.33333e-01;nhomalt_oth_female=0;controls_AC_nfe=4;controls_AN_nfe=68;controls_AF_nfe=5.88235e-02;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=2;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=0;controls_nhomalt_asj=0;non_neuro_AC_amr_male=1;non_neuro_AN_amr_male=2;non_neuro_AF_amr_male=5.00000e-01;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=2;controls_AN_nfe_nwe=10;controls_AF_nfe_nwe=2.00000e-01;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=4;AN_nfe_nwe=82;AF_nfe_nwe=4.87805e-02;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=0;controls_nhomalt_nfe_seu=0;non_neuro_AC_amr_female=0;non_neuro_AN_amr_female=8;non_neuro_AF_amr_female=0.00000e+00;non_neuro_nhomalt_amr_female=0;non_neuro_AC_nfe_onf=2;non_neuro_AN_nfe_onf=18;non_neuro_AF_nfe_onf=1.11111e-01;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=4;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;controls_AC_amr_female=0;controls_AN_amr_female=4;controls_AF_amr_female=0.00000e+00;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=2;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=9;AN_female=146;AF_female=6.16438e-02;nhomalt_female=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=4;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=2;non_topmed_AN_nfe_est=56;non_topmed_AF_nfe_est=3.57143e-02;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=3;non_topmed_AN_nfe_nwe=40;non_topmed_AF_nfe_nwe=7.50000e-02;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=1;non_topmed_AN_amr_male=2;non_topmed_AF_amr_male=5.00000e-01;non_topmed_nhomalt_amr_male=0;non_topmed_AC_nfe_onf=2;non_topmed_AN_nfe_onf=16;non_topmed_AF_nfe_onf=1.25000e-01;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_male=0;controls_AN_eas_male=0;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=2;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=17;non_topmed_AN=248;non_topmed_AF=6.85484e-02;non_topmed_nhomalt=0;controls_AC_fin=0;controls_AN_fin=12;controls_AF_fin=0.00000e+00;controls_nhomalt_fin=0;non_neuro_AC_nfe=7;non_neuro_AN_nfe=150;non_neuro_AF_nfe=4.66667e-02;non_neuro_nhomalt_nfe=0;non_neuro_AC_fin_female=0;non_neuro_AN_fin_female=10;non_neuro_AF_fin_female=0.00000e+00;non_neuro_nhomalt_fin_female=0;non_topmed_AC_nfe_seu=0;non_topmed_AN_nfe_seu=0;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=6;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=0;non_topmed_AN_asj=0;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=0;controls_AN_nfe_onf=2;controls_AF_nfe_onf=0.00000e+00;controls_nhomalt_nfe_onf=0;non_neuro_AC=13;non_neuro_AN=234;non_neuro_AF=5.55556e-02;non_neuro_nhomalt=0;non_topmed_AC_nfe=7;non_topmed_AN_nfe=112;non_topmed_AF_nfe=6.25000e-02;non_topmed_nhomalt_nfe=0;non_topmed_AC_raw=28;non_topmed_AN_raw=25992;non_topmed_AF_raw=1.07725e-03;non_topmed_nhomalt_raw=0;non_neuro_AC_nfe_est=2;non_neuro_AN_nfe_est=56;non_neuro_AF_nfe_est=3.57143e-02;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=0;non_topmed_AN_oth_male=6;non_topmed_AF_oth_male=0.00000e+00;non_topmed_nhomalt_oth_male=0;AC_nfe_est=2;AN_nfe_est=56;AF_nfe_est=3.57143e-02;nhomalt_nfe_est=0;non_topmed_AC_afr_male=5;non_topmed_AN_afr_male=38;non_topmed_AF_afr_male=1.31579e-01;non_topmed_nhomalt_afr_male=0;AC_eas_male=0;AN_eas_male=4;AF_eas_male=0.00000e+00;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=6;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=4;non_neuro_AF_eas_male=0.00000e+00;non_neuro_nhomalt_eas_male=0;non_neuro_AC_asj_male=0;non_neuro_AN_asj_male=0;non_neuro_nhomalt_asj_male=0;controls_AC_oth=0;controls_AN_oth=4;controls_AF_oth=0.00000e+00;controls_nhomalt_oth=0;AC_nfe=8;AN_nfe=156;AF_nfe=5.12821e-02;nhomalt_nfe=0;non_topmed_AC_female=8;non_topmed_AN_female=138;non_topmed_AF_female=5.79710e-02;non_topmed_nhomalt_female=0;non_neuro_AC_asj=0;non_neuro_AN_asj=0;non_neuro_nhomalt_asj=0;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=6;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=23;non_neuro_AN_raw=20904;non_neuro_AF_raw=1.10027e-03;non_neuro_nhomalt_raw=0;non_topmed_AC_eas=0;non_topmed_AN_eas=10;non_topmed_AF_eas=0.00000e+00;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=1;non_topmed_AN_fin_male=16;non_topmed_AF_fin_male=6.25000e-02;non_topmed_nhomalt_fin_male=0;AC_fin=2;AN_fin=34;AF_fin=5.88235e-02;nhomalt_fin=0;AC_nfe_male=3;AN_nfe_male=82;AF_nfe_male=3.65854e-02;nhomalt_nfe_male=0;controls_AC_amr_male=0;controls_AN_amr_male=0;controls_nhomalt_amr_male=0;controls_AC_afr_female=1;controls_AN_afr_female=14;controls_AF_afr_female=7.14286e-02;controls_nhomalt_afr_female=0;controls_AC_amr=0;controls_AN_amr=4;controls_AF_amr=0.00000e+00;controls_nhomalt_amr=0;AC_asj_female=0;AN_asj_female=0;nhomalt_asj_female=0;non_neuro_AC_eas=0;non_neuro_AN_eas=10;non_neuro_AF_eas=0.00000e+00;non_neuro_nhomalt_eas=0;non_neuro_AC_male=7;non_neuro_AN_male=112;non_neuro_AF_male=6.25000e-02;non_neuro_nhomalt_male=0;AC_asj=0;AN_asj=0;nhomalt_asj=0;controls_AC_nfe_est=2;controls_AN_nfe_est=56;controls_AF_nfe_est=3.57143e-02;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=0;non_topmed_AN_asj_female=0;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=1;non_topmed_AN_oth=10;non_topmed_AF_oth=1.00000e-01;non_topmed_nhomalt_oth=0;non_topmed_AC_fin_female=1;non_topmed_AN_fin_female=18;non_topmed_AF_fin_female=5.55556e-02;non_topmed_nhomalt_fin_female=0;AC_oth=2;AN_oth=12;AF_oth=1.66667e-01;nhomalt_oth=0;non_neuro_AC_nfe_male=3;non_neuro_AN_nfe_male=82;non_neuro_AF_nfe_male=3.65854e-02;non_neuro_nhomalt_nfe_male=0;controls_AC_female=4;controls_AN_female=72;controls_AF_female=5.55556e-02;controls_nhomalt_female=0;non_topmed_AC_fin=2;non_topmed_AN_fin=34;non_topmed_AF_fin=5.88235e-02;non_topmed_nhomalt_fin=0;non_topmed_AC_nfe_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||||||||||||||||||||||||| 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+2 10205 rs111214705 TAACCCTACCCGAACCCTAACCCTAACCCTAACCCCTAACCCTAACCCCTAACCCTAACCCTAACCGTAACCCTAACCCTTTACCCTAACCCG T 103212.09 AC0 AC=0;AN=156;AF=0.00000e+00;rf_tp_probability=9.06264e-01;FS=1.89600e+00;InbreedingCoeff=1.36000e-01;MQ=5.45200e+01;MQRankSum=8.04000e-01;QD=3.42400e+01;ReadPosRankSum=8.04000e-01;SOR=5.65000e-01;VQSR_NEGATIVE_TRAIN_SITE;BaseQRankSum=8.04000e-01;ClippingRankSum=8.04000e-01;DP=73630;VQSLOD=-1.03200e+00;VQSR_culprit=FS;lcr;decoy;variant_type=mixed;allele_type=del;n_alt_alleles=2;was_mixed;gq_hist_alt_bin_freq=0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=4943|1803|442|374|106|23|24|8|2|0|1|0|0|0|0|0|0|0|0|0;dp_hist_alt_bin_freq=1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=11134|3961|535|63|13|2|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_larger=0;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=0;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=2;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_topmed_AC_amr=0;non_topmed_AN_amr=6;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;AC_raw=2;AN_raw=15452;AF_raw=1.29433e-04;nhomalt_raw=1;AC_fin_female=0;AN_fin_female=32;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=0;non_neuro_nhomalt_asj_female=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=2;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=4;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=10;AF_afr=0.00000e+00;nhomalt_afr=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=2;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=2;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=0;nhomalt_eas_female=0;AC_afr_female=0;AN_afr_female=6;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;non_neuro_AC_female=0;non_neuro_AN_female=44;non_neuro_AF_female=0.00000e+00;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=4;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;AC_nfe_onf=0;AN_nfe_onf=10;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;controls_AC_fin_male=0;controls_AN_fin_male=10;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=56;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=30;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=38;AF_nfe_female=0.00000e+00;nhomalt_nfe_female=0;AC_amr=0;AN_amr=6;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=20;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;AC_eas=0;AN_eas=0;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=38;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=4;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=0;controls_AN_raw=5290;controls_AF_raw=0.00000e+00;controls_nhomalt_raw=0;controls_AC_male=0;controls_AN_male=24;controls_AF_male=0.00000e+00;controls_nhomalt_male=0;non_topmed_AC_male=0;non_topmed_AN_male=60;non_topmed_AF_male=0.00000e+00;non_topmed_nhomalt_male=0;controls_AC_nfe_female=0;controls_AN_nfe_female=6;controls_AF_nfe_female=0.00000e+00;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=0;non_neuro_AN_amr=4;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=0;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=0;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=10;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=14;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;AC_oth_female=0;AN_oth_female=2;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;controls_AC_nfe=0;controls_AN_nfe=16;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=0;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=0;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=4;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=6;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=0;AN_nfe_nwe=56;AF_nfe_nwe=0.00000e+00;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=0;controls_nhomalt_nfe_seu=0;non_neuro_AC_amr_female=0;non_neuro_AN_amr_female=0;non_neuro_nhomalt_amr_female=0;non_neuro_AC_nfe_onf=0;non_neuro_AN_nfe_onf=10;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=0;non_topmed_nhomalt_eas_male=0;controls_AC_amr_female=0;controls_AN_amr_female=0;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=10;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=0;AN_female=80;AF_female=0.00000e+00;nhomalt_female=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=0;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=8;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=0;non_topmed_AN_nfe_nwe=22;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=0;non_topmed_AN_amr_male=4;non_topmed_AF_amr_male=0.00000e+00;non_topmed_nhomalt_amr_male=0;non_topmed_AC_nfe_onf=0;non_topmed_AN_nfe_onf=8;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_male=0;controls_AN_eas_male=0;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=0;controls_nhomalt_oth_male=0;non_topmed_AC=0;non_topmed_AN=120;non_topmed_AF=0.00000e+00;non_topmed_nhomalt=0;controls_AC_fin=0;controls_AN_fin=14;controls_AF_fin=0.00000e+00;controls_nhomalt_fin=0;non_neuro_AC_nfe=0;non_neuro_AN_nfe=74;non_neuro_AF_nfe=0.00000e+00;non_neuro_nhomalt_nfe=0;non_neuro_AC_fin_female=0;non_neuro_AN_fin_female=4;non_neuro_AF_fin_female=0.00000e+00;non_neuro_nhomalt_fin_female=0;non_topmed_AC_nfe_seu=0;non_topmed_AN_nfe_seu=0;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=0;controls_nhomalt_eas_female=0;non_topmed_AC_asj=0;non_topmed_AN_asj=0;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=0;controls_AN_nfe_onf=2;controls_AF_nfe_onf=0.00000e+00;controls_nhomalt_nfe_onf=0;non_neuro_AC=0;non_neuro_AN=96;non_neuro_AF=0.00000e+00;non_neuro_nhomalt=0;non_topmed_AC_nfe=0;non_topmed_AN_nfe=38;non_topmed_AF_nfe=0.00000e+00;non_topmed_nhomalt_nfe=0;non_topmed_AC_raw=2;non_topmed_AN_raw=12718;non_topmed_AF_raw=1.57257e-04;non_topmed_nhomalt_raw=1;non_neuro_AC_nfe_est=0;non_neuro_AN_nfe_est=8;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=0;non_topmed_AN_oth_male=2;non_topmed_AF_oth_male=0.00000e+00;non_topmed_nhomalt_oth_male=0;AC_nfe_est=0;AN_nfe_est=8;AF_nfe_est=0.00000e+00;nhomalt_nfe_est=0;non_topmed_AC_afr_male=0;non_topmed_AN_afr_male=4;non_topmed_AF_afr_male=0.00000e+00;non_topmed_nhomalt_afr_male=0;AC_eas_male=0;AN_eas_male=0;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=0;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=0;non_neuro_nhomalt_eas_male=0;non_neuro_AC_asj_male=0;non_neuro_AN_asj_male=0;non_neuro_nhomalt_asj_male=0;controls_AC_oth=0;controls_AN_oth=0;controls_nhomalt_oth=0;AC_nfe=0;AN_nfe=74;AF_nfe=0.00000e+00;nhomalt_nfe=0;non_topmed_AC_female=0;non_topmed_AN_female=60;non_topmed_AF_female=0.00000e+00;non_topmed_nhomalt_female=0;non_neuro_AC_asj=0;non_neuro_AN_asj=0;non_neuro_nhomalt_asj=0;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=0;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=0;non_neuro_AN_raw=10932;non_neuro_AF_raw=0.00000e+00;non_neuro_nhomalt_raw=0;non_topmed_AC_eas=0;non_topmed_AN_eas=0;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=0;non_topmed_AN_fin_male=30;non_topmed_AF_fin_male=0.00000e+00;non_topmed_nhomalt_fin_male=0;AC_fin=0;AN_fin=62;AF_fin=0.00000e+00;nhomalt_fin=0;AC_nfe_male=0;AN_nfe_male=36;AF_nfe_male=0.00000e+00;nhomalt_nfe_male=0;controls_AC_amr_male=0;controls_AN_amr_male=2;controls_AF_amr_male=0.00000e+00;controls_nhomalt_amr_male=0;controls_AC_afr_female=0;controls_AN_afr_female=2;controls_AF_afr_female=0.00000e+00;controls_nhomalt_afr_female=0;controls_AC_amr=0;controls_AN_amr=2;controls_AF_amr=0.00000e+00;controls_nhomalt_amr=0;AC_asj_female=0;AN_asj_female=0;nhomalt_asj_female=0;non_neuro_AC_eas=0;non_neuro_AN_eas=0;non_neuro_nhomalt_eas=0;non_neuro_AC_male=0;non_neuro_AN_male=52;non_neuro_AF_male=0.00000e+00;non_neuro_nhomalt_male=0;AC_asj=0;AN_asj=0;nhomalt_asj=0;controls_AC_nfe_est=0;controls_AN_nfe_est=8;controls_AF_nfe_est=0.00000e+00;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=0;non_topmed_AN_asj_female=0;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=0;non_topmed_AN_oth=4;non_topmed_AF_oth=0.00000e+00;non_topmed_nhomalt_oth=0;non_topmed_AC_fin_female=0;non_topmed_AN_fin_female=32;non_topmed_AF_fin_female=0.00000e+00;non_topmed_nhomalt_fin_female=0;AC_oth=0;AN_oth=4;AF_oth=0.00000e+00;nhomalt_oth=0;non_neuro_AC_nfe_male=0;non_neuro_AN_nfe_male=36;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_nhomalt_nfe_male=0;controls_AC_female=0;controls_AN_female=12;controls_AF_female=0.00000e+00;controls_nhomalt_female=0;non_topmed_AC_fin=0;non_topmed_AN_fin=62;non_topmed_AF_fin=0.00000e+00;non_topmed_nhomalt_fin=0;non_topmed_AC_nfe_female=0;non_topmed_AN_nfe_female=18;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_nhomalt_nfe_female=0;controls_AC_asj_male=0;controls_AN_asj_male=0;controls_nhomalt_asj_male=0;non_topmed_AC_asj_male=0;non_topmed_AN_asj_male=0;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=0;non_neuro_AN_oth=0;non_neuro_nhomalt_oth=0;AC_male=0;AN_male=76;AF_male=0.00000e+00;nhomalt_male=0;controls_AC_fin_female=0;controls_AN_fin_female=4;controls_AF_fin_female=0.00000e+00;controls_nhomalt_fin_female=0;controls_AC_asj_female=0;controls_AN_asj_female=0;controls_nhomalt_asj_female=0;AC_amr_male=0;AN_amr_male=4;AF_amr_male=0.00000e+00;nhomalt_amr_male=0;AC_amr_female=0;AN_amr_female=2;AF_amr_female=0.00000e+00;nhomalt_amr_female=0;AC_oth_male=0;AN_oth_male=2;AF_oth_male=0.00000e+00;nhomalt_oth_male=0;non_neuro_AC_nfe_seu=0;non_neuro_AN_nfe_seu=0;non_neuro_nhomalt_nfe_seu=0;non_topmed_AC_afr_female=0;non_topmed_AN_afr_female=6;non_topmed_AF_afr_female=0.00000e+00;non_topmed_nhomalt_afr_female=0;non_topmed_AC_afr=0;non_topmed_AN_afr=10;non_topmed_AF_afr=0.00000e+00;non_topmed_nhomalt_afr=0;controls_AC=0;controls_AN=36;controls_AF=0.00000e+00;controls_nhomalt=0;non_neuro_AC_oth_female=0;non_neuro_AN_oth_female=0;non_neuro_nhomalt_oth_female=0;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;faf95_afr=0.00000e+00;faf99_afr=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf99_afr=0.00000e+00;faf95_amr=0.00000e+00;faf99_amr=0.00000e+00;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=0.00000e+00;faf99=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf99_nfe=0.00000e+00;non_topmed_faf95=0.00000e+00;non_topmed_faf99=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf95=0.00000e+00;non_neuro_faf99=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf99_nfe=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf99_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;controls_faf95=0.00000e+00;controls_faf99=0.00000e+00;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;vep=-|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00000675422|TF_binding_site|||||||||||1||||deletion|1||||||||||||||||||||||||||||||||||||||||||||,-|intergenic_variant|MODIFIER||||||||||||||||1||||deletion|1|||||||||||||||||||||||||||||||||||||||||||| +2 10206 rs1173954572 AACCCT A 4195.24 AC0 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omalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_raw=87;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;pab_max=1.00000e+00;rf_label=FP;rf_negative_label;rf_tp_probability=8.36542e-01;rf_train;segdup;variant_type=snv;vep=C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000423562|unprocessed_pseudogene||||||||||rs62635282|1|2165|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000438504|unprocessed_pseudogene||||||||||rs62635282|1|2165|-1||SNV|1|HGNC|38034|YES|||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene|2/6||ENST00000450305.2:n.68G>C||68|||||rs62635282|1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript|1/3||ENST00000456328.2:n.330G>C||330|||||rs62635282|1||1||SNV|1|HGNC|37102|YES|||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene||||||||||rs62635282|1|2206|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000515242|transcribed_unprocessed_pseudogene|1/3||ENST00000515242.2:n.327G>C||327|||||rs62635282|1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000518655|transcribed_unprocessed_pseudogene|1/4||ENST00000518655.2:n.325G>C||325|||||rs62635282|1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000538476|unprocessed_pseudogene||||||||||rs62635282|1|2213|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000541675|unprocessed_pseudogene||||||||||rs62635282|1|2165|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001576075|CTCF_binding_site||||||||||rs62635282|1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +chr1 12237 rs1324090652 G A 81.96 AC0 AC=0;AC_afr=0;AC_afr_female=0;AC_afr_male=0;AC_amr=0;AC_amr_female=0;AC_amr_male=0;AC_asj=0;AC_asj_female=0;AC_asj_male=0;AC_eas=0;AC_eas_female=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_female=0;AC_fin=0;AC_fin_female=0;AC_fin_male=0;AC_male=0;AC_nfe=0;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_female=0;AC_nfe_male=0;AC_nfe_nwe=0;AC_nfe_onf=0;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_female=0;AC_oth_male=0;AC_raw=5;AC_sas=0;AC_sas_female=0;AC_sas_male=0;AF_raw=4.40995e-04;AN=0;AN_afr=0;AN_afr_female=0;AN_afr_male=0;AN_amr=0;AN_amr_female=0;AN_amr_male=0;AN_asj=0;AN_asj_female=0;AN_asj_male=0;AN_eas=0;AN_eas_female=0;AN_eas_jpn=0;AN_eas_kor=0;AN_eas_male=0;AN_eas_oea=0;AN_female=0;AN_fin=0;AN_fin_female=0;AN_fin_male=0;AN_male=0;AN_nfe=0;AN_nfe_bgr=0;AN_nfe_est=0;AN_nfe_female=0;AN_nfe_male=0;AN_nfe_nwe=0;AN_nfe_onf=0;AN_nfe_seu=0;AN_nfe_swe=0;AN_oth=0;AN_oth_female=0;AN_oth_male=0;AN_raw=11338;AN_sas=0;AN_sas_female=0;AN_sas_male=0;BaseQRankSum=7.36000e-01;ClippingRankSum=-3.58000e-01;DP=16096;FS=0.00000e+00;InbreedingCoeff=-1.43700e-01;MQ=2.20000e+01;MQRankSum=-3.58000e-01;OriginalContig=1;OriginalStart=12237;QD=4.31000e+00;ReadPosRankSum=3.58000e-01;SOR=1.29200e+00;VQSLOD=1.57000e+00;VQSR_culprit=QD;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|1|0|2|1|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=0;controls_AC_afr=0;controls_AC_afr_female=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_female=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_female=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_female=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_female=0;controls_AC_fin=0;controls_AC_fin_female=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_female=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_female=0;controls_AC_oth_male=0;controls_AC_raw=3;controls_AC_sas=0;controls_AC_sas_female=0;controls_AC_sas_male=0;controls_AF_raw=5.81395e-04;controls_AN=0;controls_AN_afr=0;controls_AN_afr_female=0;controls_AN_afr_male=0;controls_AN_amr=0;controls_AN_amr_female=0;controls_AN_amr_male=0;controls_AN_asj=0;controls_AN_asj_female=0;controls_AN_asj_male=0;controls_AN_eas=0;controls_AN_eas_female=0;controls_AN_eas_jpn=0;controls_AN_eas_kor=0;controls_AN_eas_male=0;controls_AN_eas_oea=0;controls_AN_female=0;controls_AN_fin=0;controls_AN_fin_female=0;controls_AN_fin_male=0;controls_AN_male=0;controls_AN_nfe=0;controls_AN_nfe_bgr=0;controls_AN_nfe_est=0;controls_AN_nfe_female=0;controls_AN_nfe_male=0;controls_AN_nfe_nwe=0;controls_AN_nfe_onf=0;controls_AN_nfe_seu=0;controls_AN_nfe_swe=0;controls_AN_oth=0;controls_AN_oth_female=0;controls_AN_oth_male=0;controls_AN_raw=5160;controls_AN_sas=0;controls_AN_sas_female=0;controls_AN_sas_male=0;controls_faf95=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99=0.00000e+00;controls_faf99_afr=0.00000e+00;controls_faf99_amr=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf99_nfe=0.00000e+00;controls_faf99_sas=0.00000e+00;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_female=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_female=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_female=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_female=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_female=0;controls_nhomalt_fin=0;controls_nhomalt_fin_female=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_female=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_female=0;controls_nhomalt_oth_male=0;controls_nhomalt_raw=1;controls_nhomalt_sas=0;controls_nhomalt_sas_female=0;controls_nhomalt_sas_male=0;dp_hist_all_bin_freq=164194|137|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_larger=0;dp_hist_alt_bin_freq=3|2|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=0.00000e+00;faf95_afr=0.00000e+00;faf95_amr=0.00000e+00;faf95_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf95_sas=0.00000e+00;faf99=0.00000e+00;faf99_afr=0.00000e+00;faf99_amr=0.00000e+00;faf99_eas=0.00000e+00;faf99_nfe=0.00000e+00;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=3853|1820|190|107|17|1|1|0|2|0|0|0|0|0|0|0|0|0|0|0;gq_hist_alt_bin_freq=0|1|0|1|1|0|0|0|2|0|0|0|0|0|0|0|0|0|0|0;n_alt_alleles=1;nhomalt=0;nhomalt_afr=0;nhomalt_afr_female=0;nhomalt_afr_male=0;nhomalt_amr=0;nhomalt_amr_female=0;nhomalt_amr_male=0;nhomalt_asj=0;nhomalt_asj_female=0;nhomalt_asj_male=0;nhomalt_eas=0;nhomalt_eas_female=0;nhomalt_eas_jpn=0;nhomalt_eas_kor=0;nhomalt_eas_male=0;nhomalt_eas_oea=0;nhomalt_female=0;nhomalt_fin=0;nhomalt_fin_female=0;nhomalt_fin_male=0;nhomalt_male=0;nhomalt_nfe=0;nhomalt_nfe_bgr=0;nhomalt_nfe_est=0;nhomalt_nfe_female=0;nhomalt_nfe_male=0;nhomalt_nfe_nwe=0;nhomalt_nfe_onf=0;nhomalt_nfe_seu=0;nhomalt_nfe_swe=0;nhomalt_oth=0;nhomalt_oth_female=0;nhomalt_oth_male=0;nhomalt_raw=1;nhomalt_sas=0;nhomalt_sas_female=0;nhomalt_sas_male=0;non_cancer_AC=0;non_cancer_AC_afr=0;non_cancer_AC_afr_female=0;non_cancer_AC_afr_male=0;non_cancer_AC_amr=0;non_cancer_AC_amr_female=0;non_cancer_AC_amr_male=0;non_cancer_AC_asj=0;non_cancer_AC_asj_female=0;non_cancer_AC_asj_male=0;non_cancer_AC_eas=0;non_cancer_AC_eas_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AC_eas_kor=0;non_cancer_AC_eas_male=0;non_cancer_AC_eas_oea=0;non_cancer_AC_female=0;non_cancer_AC_fin=0;non_cancer_AC_fin_female=0;non_cancer_AC_fin_male=0;non_cancer_AC_male=0;non_cancer_AC_nfe=0;non_cancer_AC_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AC_nfe_female=0;non_cancer_AC_nfe_male=0;non_cancer_AC_nfe_nwe=0;non_cancer_AC_nfe_onf=0;non_cancer_AC_nfe_seu=0;non_cancer_AC_nfe_swe=0;non_cancer_AC_oth=0;non_cancer_AC_oth_female=0;non_cancer_AC_oth_male=0;non_cancer_AC_raw=5;non_cancer_AC_sas=0;non_cancer_AC_sas_female=0;non_cancer_AC_sas_male=0;non_cancer_AF_raw=4.41073e-04;non_cancer_AN=0;non_cancer_AN_afr=0;non_cancer_AN_afr_female=0;non_cancer_AN_afr_male=0;non_cancer_AN_amr=0;non_cancer_AN_amr_female=0;non_cancer_AN_amr_male=0;non_cancer_AN_asj=0;non_cancer_AN_asj_female=0;non_cancer_AN_asj_male=0;non_cancer_AN_eas=0;non_cancer_AN_eas_female=0;non_cancer_AN_eas_jpn=0;non_cancer_AN_eas_kor=0;non_cancer_AN_eas_male=0;non_cancer_AN_eas_oea=0;non_cancer_AN_female=0;non_cancer_AN_fin=0;non_cancer_AN_fin_female=0;non_cancer_AN_fin_male=0;non_cancer_AN_male=0;non_cancer_AN_nfe=0;non_cancer_AN_nfe_bgr=0;non_cancer_AN_nfe_est=0;non_cancer_AN_nfe_female=0;non_cancer_AN_nfe_male=0;non_cancer_AN_nfe_nwe=0;non_cancer_AN_nfe_onf=0;non_cancer_AN_nfe_seu=0;non_cancer_AN_nfe_swe=0;non_cancer_AN_oth=0;non_cancer_AN_oth_female=0;non_cancer_AN_oth_male=0;non_cancer_AN_raw=11336;non_cancer_AN_sas=0;non_cancer_AN_sas_female=0;non_cancer_AN_sas_male=0;non_cancer_faf95=0.00000e+00;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=0.00000e+00;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=0.00000e+00;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_raw=1;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_neuro_AC=0;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=0;non_neuro_AC_amr_female=0;non_neuro_AC_amr_male=0;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=0;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=0;non_neuro_AC_nfe=0;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=0;non_neuro_AC_nfe_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=0;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_raw=5;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF_raw=4.71609e-04;non_neuro_AN=0;non_neuro_AN_afr=0;non_neuro_AN_afr_female=0;non_neuro_AN_afr_male=0;non_neuro_AN_amr=0;non_neuro_AN_amr_female=0;non_neuro_AN_amr_male=0;non_neuro_AN_asj=0;non_neuro_AN_asj_female=0;non_neuro_AN_asj_male=0;non_neuro_AN_eas=0;non_neuro_AN_eas_female=0;non_neuro_AN_eas_jpn=0;non_neuro_AN_eas_kor=0;non_neuro_AN_eas_male=0;non_neuro_AN_eas_oea=0;non_neuro_AN_female=0;non_neuro_AN_fin=0;non_neuro_AN_fin_female=0;non_neuro_AN_fin_male=0;non_neuro_AN_male=0;non_neuro_AN_nfe=0;non_neuro_AN_nfe_bgr=0;non_neuro_AN_nfe_est=0;non_neuro_AN_nfe_female=0;non_neuro_AN_nfe_male=0;non_neuro_AN_nfe_nwe=0;non_neuro_AN_nfe_onf=0;non_neuro_AN_nfe_seu=0;non_neuro_AN_nfe_swe=0;non_neuro_AN_oth=0;non_neuro_AN_oth_female=0;non_neuro_AN_oth_male=0;non_neuro_AN_raw=10602;non_neuro_AN_sas=0;non_neuro_AN_sas_female=0;non_neuro_AN_sas_male=0;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_raw=1;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_topmed_AC=0;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_female=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=0;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=0;non_topmed_AC_nfe=0;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=0;non_topmed_AC_nfe_male=0;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_raw=5;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF_raw=4.60829e-04;non_topmed_AN=0;non_topmed_AN_afr=0;non_topmed_AN_afr_female=0;non_topmed_AN_afr_male=0;non_topmed_AN_amr=0;non_topmed_AN_amr_female=0;non_topmed_AN_amr_male=0;non_topmed_AN_asj=0;non_topmed_AN_asj_female=0;non_topmed_AN_asj_male=0;non_topmed_AN_eas=0;non_topmed_AN_eas_female=0;non_topmed_AN_eas_jpn=0;non_topmed_AN_eas_kor=0;non_topmed_AN_eas_male=0;non_topmed_AN_eas_oea=0;non_topmed_AN_female=0;non_topmed_AN_fin=0;non_topmed_AN_fin_female=0;non_topmed_AN_fin_male=0;non_topmed_AN_male=0;non_topmed_AN_nfe=0;non_topmed_AN_nfe_bgr=0;non_topmed_AN_nfe_est=0;non_topmed_AN_nfe_female=0;non_topmed_AN_nfe_male=0;non_topmed_AN_nfe_nwe=0;non_topmed_AN_nfe_onf=0;non_topmed_AN_nfe_seu=0;non_topmed_AN_nfe_swe=0;non_topmed_AN_oth=0;non_topmed_AN_oth_female=0;non_topmed_AN_oth_male=0;non_topmed_AN_raw=10850;non_topmed_AN_sas=0;non_topmed_AN_sas_female=0;non_topmed_AN_sas_male=0;non_topmed_faf95=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_female=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_female=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_female=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_female=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_female=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_female=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_female=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_raw=1;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;pab_max=1.00000e+00;rf_label=FP;rf_negative_label;rf_tp_probability=4.32548e-01;rf_train;segdup;variant_type=snv;vep=A|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000423562|unprocessed_pseudogene|||||||||||1|2126|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,A|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000438504|unprocessed_pseudogene|||||||||||1|2126|-1||SNV|1|HGNC|38034|YES|||||||||||||||||||||||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene||2/5|ENST00000450305.2:n.97+10G>A||||||||1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript||1/2|ENST00000456328.2:n.359+10G>A||||||||1||1||SNV|1|HGNC|37102|YES|||||||||||||||||||||||||||||||||||||||||,A|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene|||||||||||1|2167|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000515242|transcribed_unprocessed_pseudogene||1/2|ENST00000515242.2:n.356+10G>A||||||||1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000518655|transcribed_unprocessed_pseudogene||1/3|ENST00000518655.2:n.354+10G>A||||||||1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,A|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000538476|unprocessed_pseudogene|||||||||||1|2174|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,A|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000541675|unprocessed_pseudogene|||||||||||1|2126|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,A|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001576075|CTCF_binding_site|||||||||||1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +chr1 12259 rs1330604035 G C 37.42 AC0 AC=0;AC_afr=0;AC_afr_female=0;AC_afr_male=0;AC_amr=0;AC_amr_female=0;AC_amr_male=0;AC_asj=0;AC_asj_female=0;AC_asj_male=0;AC_eas=0;AC_eas_female=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_female=0;AC_fin=0;AC_fin_female=0;AC_fin_male=0;AC_male=0;AC_nfe=0;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_female=0;AC_nfe_male=0;AC_nfe_nwe=0;AC_nfe_onf=0;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_female=0;AC_oth_male=0;AC_raw=2;AC_sas=0;AC_sas_female=0;AC_sas_male=0;AF=0.00000e+00;AF_male=0.00000e+00;AF_raw=1.55788e-04;AF_sas=0.00000e+00;AF_sas_male=0.00000e+00;AN=2;AN_afr=0;AN_afr_female=0;AN_afr_male=0;AN_amr=0;AN_amr_female=0;AN_amr_male=0;AN_asj=0;AN_asj_female=0;AN_asj_male=0;AN_eas=0;AN_eas_female=0;AN_eas_jpn=0;AN_eas_kor=0;AN_eas_male=0;AN_eas_oea=0;AN_female=0;AN_fin=0;AN_fin_female=0;AN_fin_male=0;AN_male=2;AN_nfe=0;AN_nfe_bgr=0;AN_nfe_est=0;AN_nfe_female=0;AN_nfe_male=0;AN_nfe_nwe=0;AN_nfe_onf=0;AN_nfe_seu=0;AN_nfe_swe=0;AN_oth=0;AN_oth_female=0;AN_oth_male=0;AN_raw=12838;AN_sas=2;AN_sas_female=0;AN_sas_male=2;DP=18814;FS=0.00000e+00;InbreedingCoeff=-1.41500e-01;MQ=2.00000e+01;OriginalContig=1;OriginalStart=12259;QD=9.36000e+00;SOR=6.93000e-01;VQSLOD=2.24000e+00;VQSR_culprit=MQ;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=0;controls_AC_afr=0;controls_AC_afr_female=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_female=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_female=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_female=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_female=0;controls_AC_fin=0;controls_AC_fin_female=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_female=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_female=0;controls_AC_oth_male=0;controls_AC_raw=2;controls_AC_sas=0;controls_AC_sas_female=0;controls_AC_sas_male=0;controls_AF_raw=3.45662e-04;controls_AN=0;controls_AN_afr=0;controls_AN_afr_female=0;controls_AN_afr_male=0;controls_AN_amr=0;controls_AN_amr_female=0;controls_AN_amr_male=0;controls_AN_asj=0;controls_AN_asj_female=0;controls_AN_asj_male=0;controls_AN_eas=0;controls_AN_eas_female=0;controls_AN_eas_jpn=0;controls_AN_eas_kor=0;controls_AN_eas_male=0;controls_AN_eas_oea=0;controls_AN_female=0;controls_AN_fin=0;controls_AN_fin_female=0;controls_AN_fin_male=0;controls_AN_male=0;controls_AN_nfe=0;controls_AN_nfe_bgr=0;controls_AN_nfe_est=0;controls_AN_nfe_female=0;controls_AN_nfe_male=0;controls_AN_nfe_nwe=0;controls_AN_nfe_onf=0;controls_AN_nfe_seu=0;controls_AN_nfe_swe=0;controls_AN_oth=0;controls_AN_oth_female=0;controls_AN_oth_male=0;controls_AN_raw=5786;controls_AN_sas=0;controls_AN_sas_female=0;controls_AN_sas_male=0;controls_faf95=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99=0.00000e+00;controls_faf99_afr=0.00000e+00;controls_faf99_amr=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf99_nfe=0.00000e+00;controls_faf99_sas=0.00000e+00;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_female=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_female=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_female=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_female=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_female=0;controls_nhomalt_fin=0;controls_nhomalt_fin_female=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_female=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_female=0;controls_nhomalt_oth_male=0;controls_nhomalt_raw=1;controls_nhomalt_sas=0;controls_nhomalt_sas_female=0;controls_nhomalt_sas_male=0;dp_hist_all_bin_freq=164132|199|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_larger=0;dp_hist_alt_bin_freq=1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=0.00000e+00;faf95_afr=0.00000e+00;faf95_amr=0.00000e+00;faf95_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf95_sas=0.00000e+00;faf99=0.00000e+00;faf99_afr=0.00000e+00;faf99_amr=0.00000e+00;faf99_eas=0.00000e+00;faf99_nfe=0.00000e+00;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=4214|2122|261|154|23|5|1|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_alt_bin_freq=0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;n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o_AN=2;non_neuro_AN_afr=0;non_neuro_AN_afr_female=0;non_neuro_AN_afr_male=0;non_neuro_AN_amr=0;non_neuro_AN_amr_female=0;non_neuro_AN_amr_male=0;non_neuro_AN_asj=0;non_neuro_AN_asj_female=0;non_neuro_AN_asj_male=0;non_neuro_AN_eas=0;non_neuro_AN_eas_female=0;non_neuro_AN_eas_jpn=0;non_neuro_AN_eas_kor=0;non_neuro_AN_eas_male=0;non_neuro_AN_eas_oea=0;non_neuro_AN_female=0;non_neuro_AN_fin=0;non_neuro_AN_fin_female=0;non_neuro_AN_fin_male=0;non_neuro_AN_male=2;non_neuro_AN_nfe=0;non_neuro_AN_nfe_bgr=0;non_neuro_AN_nfe_est=0;non_neuro_AN_nfe_female=0;non_neuro_AN_nfe_male=0;non_neuro_AN_nfe_nwe=0;non_neuro_AN_nfe_onf=0;non_neuro_AN_nfe_seu=0;non_neuro_AN_nfe_swe=0;non_neuro_AN_oth=0;non_neuro_AN_oth_female=0;non_neuro_AN_oth_male=0;non_neuro_AN_raw=11930;non_neuro_AN_sas=2;non_neuro_AN_sas_female=0;non_neuro_AN_sas_male=2;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_raw=1;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_topmed_AC=0;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_female=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=0;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=0;non_topmed_AC_nfe=0;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=0;non_topmed_AC_nfe_male=0;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_raw=2;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=0.00000e+00;non_topmed_AF_male=0.00000e+00;non_topmed_AF_raw=1.62787e-04;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=2;non_topmed_AN_afr=0;non_topmed_AN_afr_female=0;non_topmed_AN_afr_male=0;non_topmed_AN_amr=0;non_topmed_AN_amr_female=0;non_topmed_AN_amr_male=0;non_topmed_AN_asj=0;non_topmed_AN_asj_female=0;non_topmed_AN_asj_male=0;non_topmed_AN_eas=0;non_topmed_AN_eas_female=0;non_topmed_AN_eas_jpn=0;non_topmed_AN_eas_kor=0;non_topmed_AN_eas_male=0;non_topmed_AN_eas_oea=0;non_topmed_AN_female=0;non_topmed_AN_fin=0;non_topmed_AN_fin_female=0;non_topmed_AN_fin_male=0;non_topmed_AN_male=2;non_topmed_AN_nfe=0;non_topmed_AN_nfe_bgr=0;non_topmed_AN_nfe_est=0;non_topmed_AN_nfe_female=0;non_topmed_AN_nfe_male=0;non_topmed_AN_nfe_nwe=0;non_topmed_AN_nfe_onf=0;non_topmed_AN_nfe_seu=0;non_topmed_AN_nfe_swe=0;non_topmed_AN_oth=0;non_topmed_AN_oth_female=0;non_topmed_AN_oth_male=0;non_topmed_AN_raw=12286;non_topmed_AN_sas=2;non_topmed_AN_sas_female=0;non_topmed_AN_sas_male=2;non_topmed_faf95=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_female=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_female=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_female=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_female=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_female=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_female=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_female=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_raw=1;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;rf_label=FP;rf_negative_label;rf_tp_probability=3.76162e-01;rf_train;segdup;variant_type=snv;vep=C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000423562|unprocessed_pseudogene|||||||||||1|2104|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000438504|unprocessed_pseudogene|||||||||||1|2104|-1||SNV|1|HGNC|38034|YES|||||||||||||||||||||||||||||||||||||||||,C|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene||2/5|ENST00000450305.2:n.97+32G>C||||||||1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript||1/2|ENST00000456328.2:n.359+32G>C||||||||1||1||SNV|1|HGNC|37102|YES|||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene|||||||||||1|2145|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000515242|transcribed_unprocessed_pseudogene||1/2|ENST00000515242.2:n.356+32G>C||||||||1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|intron_variant&non_coding_transcript_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000518655|transcribed_unprocessed_pseudogene||1/3|ENST00000518655.2:n.354+32G>C||||||||1||1||SNV|1|HGNC|37102||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000538476|unprocessed_pseudogene|||||||||||1|2152|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000541675|unprocessed_pseudogene|||||||||||1|2104|-1||SNV|1|HGNC|38034||||||||||||||||||||||||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001576075|CTCF_binding_site|||||||||||1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| 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_oth=0.00000e+00;non_cancer_AF_oth_female=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_raw=0.00000e+00;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_female=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=231790;non_cancer_AN_afr=14062;non_cancer_AN_afr_female=8432;non_cancer_AN_afr_male=5630;non_cancer_AN_amr=32928;non_cancer_AN_amr_female=19324;non_cancer_AN_amr_male=13604;non_cancer_AN_asj=9454;non_cancer_AN_asj_female=4524;non_cancer_AN_asj_male=4930;non_cancer_AN_eas=17130;non_cancer_AN_eas_female=8656;non_cancer_AN_eas_jpn=104;non_cancer_AN_eas_kor=3758;non_cancer_AN_eas_male=8474;non_cancer_AN_eas_oea=13268;non_cancer_AN_female=104692;non_cancer_AN_fin=21440;non_cancer_AN_fin_female=10232;non_cancer_AN_fin_male=11208;non_cancer_AN_male=127098;non_cancer_AN_nfe=101504;non_cancer_AN_nfe_bgr=2520;non_cancer_AN_nfe_est=158;non_cancer_AN_nfe_female=43626;non_cancer_AN_nfe_male=57878;non_cancer_AN_nfe_nwe=38832;non_cancer_AN_nfe_onf=24270;non_cancer_AN_nfe_seu=10488;non_cancer_AN_nfe_swe=25236;non_cancer_AN_oth=5420;non_cancer_AN_oth_female=2572;non_cancer_AN_oth_male=2848;non_cancer_AN_raw=235518;non_cancer_AN_sas=29852;non_cancer_AN_sas_female=7326;non_cancer_AN_sas_male=22526;non_cancer_faf95=0.00000e+00;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=0.00000e+00;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=0.00000e+00;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_neuro_AC=1;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=0;non_neuro_AC_amr_female=0;non_neuro_AC_amr_male=0;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=1;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=0;non_neuro_AC_nfe=1;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=1;non_neuro_AC_nfe_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=1;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=1;non_neuro_AC_raw=1;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF=4.91860e-06;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_female=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=0.00000e+00;non_neuro_AF_amr_female=0.00000e+00;non_neuro_AF_amr_male=0.00000e+00;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_female=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=0.00000e+00;non_neuro_AF_eas_female=0.00000e+00;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_AF_eas_male=0.00000e+00;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_female=1.07712e-05;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_female=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=0.00000e+00;non_neuro_AF_nfe=1.13091e-05;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_female=2.55050e-05;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_AF_nfe_seu=9.23361e-05;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_female=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=1.13091e-05;non_neuro_AF_raw=4.83755e-06;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_female=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=203310;non_neuro_AN_afr=15378;non_neuro_AN_afr_female=9254;non_neuro_AN_afr_male=6124;non_neuro_AN_amr=29276;non_neuro_AN_amr_female=17556;non_neuro_AN_amr_male=11720;non_neuro_AN_asj=6138;non_neuro_AN_asj_female=3038;non_neuro_AN_asj_male=3100;non_neuro_AN_eas=12904;non_neuro_AN_eas_female=6578;non_neuro_AN_eas_jpn=130;non_neuro_AN_eas_kor=3800;non_neuro_AN_eas_male=6326;non_neuro_AN_eas_oea=8974;non_neuro_AN_female=92840;non_neuro_AN_fin=16570;non_neuro_AN_fin_female=7542;non_neuro_AN_fin_male=9028;non_neuro_AN_male=110470;non_neuro_AN_nfe=88424;non_neuro_AN_nfe_bgr=446;non_neuro_AN_nfe_est=216;non_neuro_AN_nfe_female=39208;non_neuro_AN_nfe_male=49216;non_neuro_AN_nfe_nwe=34748;non_neuro_AN_nfe_onf=27458;non_neuro_AN_nfe_seu=10830;non_neuro_AN_nfe_swe=14726;non_neuro_AN_oth=4686;non_neuro_AN_oth_female=2290;non_neuro_AN_oth_male=2396;non_neuro_AN_popmax=88424;non_neuro_AN_raw=206716;non_neuro_AN_sas=29934;non_neuro_AN_sas_female=7374;non_neuro_AN_sas_male=22560;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=nfe;non_topmed_AC=1;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_female=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=1;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=0;non_topmed_AC_nfe=1;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=1;non_topmed_AC_nfe_male=0;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=1;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=1;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=4.16941e-06;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_female=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=0.00000e+00;non_topmed_AF_amr_female=0.00000e+00;non_topmed_AF_amr_male=0.00000e+00;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_female=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_female=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_female=9.22254e-06;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_female=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=0.00000e+00;non_topmed_AF_nfe=9.05387e-06;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_female=2.07693e-05;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_AF_nfe_seu=8.86211e-05;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_female=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=9.05387e-06;non_topmed_AF_raw=4.10671e-06;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_female=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=239842;non_topmed_AN_afr=11286;non_topmed_AN_afr_female=6640;non_topmed_AN_afr_male=4646;non_topmed_AN_amr=33132;non_topmed_AN_amr_female=19436;non_topmed_AN_amr_male=13696;non_topmed_AN_asj=9880;non_topmed_AN_asj_female=4782;non_topmed_AN_asj_male=5098;non_topmed_AN_eas=17820;non_topmed_AN_eas_female=9028;non_topmed_AN_eas_jpn=132;non_topmed_AN_eas_kor=3802;non_topmed_AN_eas_male=8792;non_topmed_AN_eas_oea=13886;non_topmed_AN_female=108430;non_topmed_AN_fin=21454;non_topmed_AN_fin_female=10242;non_topmed_AN_fin_male=11212;non_topmed_AN_male=131412;non_topmed_AN_nfe=110450;non_topmed_AN_nfe_bgr=2656;non_topmed_AN_nfe_est=238;non_topmed_AN_nfe_female=48148;non_topmed_AN_nfe_male=62302;non_topmed_AN_nfe_nwe=40440;non_topmed_AN_nfe_onf=29814;non_topmed_AN_nfe_seu=11284;non_topmed_AN_nfe_swe=26018;non_topmed_AN_oth=5878;non_topmed_AN_oth_female=2778;non_topmed_AN_oth_male=3100;non_topmed_AN_popmax=110450;non_topmed_AN_raw=243504;non_topmed_AN_sas=29942;non_topmed_AN_sas_female=7376;non_topmed_AN_sas_male=22566;non_topmed_faf95=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_female=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_female=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_female=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_female=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_female=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_female=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_female=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_popmax=0;non_topmed_nhomalt_raw=0;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;non_topmed_popmax=nfe;pab_max=1.00000e+00;popmax=nfe;rf_tp_probability=8.53213e-01;variant_type=snv;vep=G|3_prime_UTR_variant|MODIFIER|FAM110C|ENSG00000184731|Transcript|ENST00000327669|protein_coding|2/2||ENST00000327669.4:c.*49T>C||1015||||||1||-1||SNV|1|HGNC|33340|YES|||CCDS42645.1|ENSP00000328347|Q1W6H9||UPI0000579458||||||||||||||||||||||||||||||||||,G|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|FAM110C|ENSG00000184731|Transcript|ENST00000460464|processed_transcript|2/2||ENST00000460464.1:n.213T>C||213||||||1||-1||SNV|1|HGNC|33340||||||||||||||||||||||||||||||||||||||||||,G|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|FAM110C|ENSG00000184731|Transcript|ENST00000461026|processed_transcript|2/2||ENST00000461026.1:n.133T>C||133||||||1||-1||SNV|1|HGNC|33340|||||||||||||||||||||||||||||||||||||||||| +chr2 41569 rs1387633455 G T 282.39 PASS AC=1;AC_afr=0;AC_afr_female=0;AC_afr_male=0;AC_amr=1;AC_amr_female=0;AC_amr_male=1;AC_asj=0;AC_asj_female=0;AC_asj_male=0;AC_eas=0;AC_eas_female=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_female=0;AC_fin=0;AC_fin_female=0;AC_fin_male=0;AC_male=1;AC_nfe=0;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_female=0;AC_nfe_male=0;AC_nfe_nwe=0;AC_nfe_onf=0;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_female=0;AC_oth_male=0;AC_popmax=1;AC_raw=1;AC_sas=0;AC_sas_female=0;AC_sas_male=0;AF=4.02408e-06;AF_afr=0.00000e+00;AF_afr_female=0.00000e+00;AF_afr_male=0.00000e+00;AF_amr=2.93393e-05;AF_amr_female=0.00000e+00;AF_amr_male=7.08818e-05;AF_asj=0.00000e+00;AF_asj_female=0.00000e+00;AF_asj_male=0.00000e+00;AF_eas=0.00000e+00;AF_eas_female=0.00000e+00;AF_eas_jpn=0.00000e+00;AF_eas_kor=0.00000e+00;AF_eas_male=0.00000e+00;AF_eas_oea=0.00000e+00;AF_female=0.00000e+00;AF_fin=0.00000e+00;AF_fin_female=0.00000e+00;AF_fin_male=0.00000e+00;AF_male=7.41422e-06;AF_nfe=0.00000e+00;AF_nfe_bgr=0.00000e+00;AF_nfe_est=0.00000e+00;AF_nfe_female=0.00000e+00;AF_nfe_male=0.00000e+00;AF_nfe_nwe=0.00000e+00;AF_nfe_onf=0.00000e+00;AF_nfe_seu=0.00000e+00;AF_nfe_swe=0.00000e+00;AF_oth=0.00000e+00;AF_oth_female=0.00000e+00;AF_oth_male=0.00000e+00;AF_popmax=2.93393e-05;AF_raw=3.99952e-06;AF_sas=0.00000e+00;AF_sas_female=0.00000e+00;AF_sas_male=0.00000e+00;AN=248504;AN_afr=15454;AN_afr_female=9288;AN_afr_male=6166;AN_amr=34084;AN_amr_female=19976;AN_amr_male=14108;AN_asj=10048;AN_asj_female=4880;AN_asj_male=5168;AN_eas=17936;AN_eas_female=9102;AN_eas_jpn=132;AN_eas_kor=3814;AN_eas_male=8834;AN_eas_oea=13990;AN_female=113628;AN_fin=21508;AN_fin_female=10282;AN_fin_male=11226;AN_male=134876;AN_nfe=113012;AN_nfe_bgr=2664;AN_nfe_est=242;AN_nfe_female=49746;AN_nfe_male=63266;AN_nfe_nwe=41850;AN_nfe_onf=30750;AN_nfe_seu=11402;AN_nfe_swe=26104;AN_oth=6016;AN_oth_female=2854;AN_oth_male=3162;AN_popmax=34084;AN_raw=250030;AN_sas=30446;AN_sas_female=7500;AN_sas_male=22946;BaseQRankSum=6.53000e-01;ClippingRankSum=8.98000e-01;DP=7713039;FS=4.15100e+00;InbreedingCoeff=1.00000e-03;MQ=6.00000e+01;MQRankSum=1.27000e+00;OriginalContig=2;OriginalStart=41569;QD=1.04600e+01;ReadPosRankSum=1.16000e+00;SOR=1.91100e+00;VQSLOD=-1.62800e+00;VQSR_NEGATIVE_TRAIN_SITE;VQSR_culprit=MQ;ab_hist_alt_bin_freq=0|0|0|0|1|0|0|0|0|0|0|0|1|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|0|1|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=0;controls_AC_afr=0;controls_AC_afr_female=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_female=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_female=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_female=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_female=0;controls_AC_fin=0;controls_AC_fin_female=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_female=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_female=0;controls_AC_oth_male=0;controls_AC_raw=0;controls_AC_sas=0;controls_AC_sas_female=0;controls_AC_sas_male=0;controls_AF=0.00000e+00;controls_AF_afr=0.00000e+00;controls_AF_afr_female=0.00000e+00;controls_AF_afr_male=0.00000e+00;controls_AF_amr=0.00000e+00;controls_AF_amr_female=0.00000e+00;controls_AF_amr_male=0.00000e+00;controls_AF_asj=0.00000e+00;controls_AF_asj_female=0.00000e+00;controls_AF_asj_male=0.00000e+00;controls_AF_eas=0.00000e+00;controls_AF_eas_female=0.00000e+00;controls_AF_eas_jpn=0.00000e+00;controls_AF_eas_kor=0.00000e+00;controls_AF_eas_male=0.00000e+00;controls_AF_eas_oea=0.00000e+00;controls_AF_female=0.00000e+00;controls_AF_fin=0.00000e+00;controls_AF_fin_female=0.00000e+00;controls_AF_fin_male=0.00000e+00;controls_AF_male=0.00000e+00;controls_AF_nfe=0.00000e+00;controls_AF_nfe_bgr=0.00000e+00;controls_AF_nfe_est=0.00000e+00;controls_AF_nfe_female=0.00000e+00;controls_AF_nfe_male=0.00000e+00;controls_AF_nfe_nwe=0.00000e+00;controls_AF_nfe_onf=0.00000e+00;controls_AF_nfe_seu=0.00000e+00;controls_AF_nfe_swe=0.00000e+00;controls_AF_oth=0.00000e+00;controls_AF_oth_female=0.00000e+00;controls_AF_oth_male=0.00000e+00;controls_AF_raw=0.00000e+00;controls_AF_sas=0.00000e+00;controls_AF_sas_female=0.00000e+00;controls_AF_sas_male=0.00000e+00;controls_AN=108144;controls_AN_afr=7126;controls_AN_afr_female=4212;controls_AN_afr_male=2914;controls_AN_amr=16814;controls_AN_amr_female=10060;controls_AN_amr_male=6754;controls_AN_asj=2316;controls_AN_asj_female=1212;controls_AN_asj_male=1104;controls_AN_eas=8618;controls_AN_eas_female=4584;controls_AN_eas_jpn=94;controls_AN_eas_kor=1886;controls_AN_eas_male=4034;controls_AN_eas_oea=6638;controls_AN_female=50628;controls_AN_fin=13270;controls_AN_fin_female=6396;controls_AN_fin_male=6874;controls_AN_male=57516;controls_AN_nfe=42526;controls_AN_nfe_bgr=678;controls_AN_nfe_est=70;controls_AN_nfe_female=19010;controls_AN_nfe_male=23516;controls_AN_nfe_nwe=14320;controls_AN_nfe_onf=9952;controls_AN_nfe_seu=4696;controls_AN_nfe_swe=12810;controls_AN_oth=1874;controls_AN_oth_female=970;controls_AN_oth_male=904;controls_AN_raw=108818;controls_AN_sas=15600;controls_AN_sas_female=4184;controls_AN_sas_male=11416;controls_faf95=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99=0.00000e+00;controls_faf99_afr=0.00000e+00;controls_faf99_amr=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf99_nfe=0.00000e+00;controls_faf99_sas=0.00000e+00;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_female=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_female=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_female=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_female=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_female=0;controls_nhomalt_fin=0;controls_nhomalt_fin_female=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_female=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_female=0;controls_nhomalt_oth_male=0;controls_nhomalt_raw=0;controls_nhomalt_sas=0;controls_nhomalt_sas_female=0;controls_nhomalt_sas_male=0;dp_hist_all_bin_freq=1265|536|3177|10154|19078|17238|16358|17906|21987|19399|10999|6664|4691|3439|2422|1812|1388|1027|864|725;dp_hist_all_n_larger=3203;dp_hist_alt_bin_freq=0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=0.00000e+00;faf95_afr=0.00000e+00;faf95_amr=1.00000e-06;faf95_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf95_sas=0.00000e+00;faf99=0.00000e+00;faf99_afr=0.00000e+00;faf99_amr=1.00000e-06;faf99_eas=0.00000e+00;faf99_nfe=0.00000e+00;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=244|131|63|155|359|343|1048|1823|1521|3746|5036|3372|11485|2853|8124|3591|9544|1181|8027|100754;gq_hist_alt_bin_freq=0|0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1;n_alt_alleles=1;nhomalt=0;nhomalt_afr=0;nhomalt_afr_female=0;nhomalt_afr_male=0;nhomalt_amr=0;nhomalt_amr_female=0;nhomalt_amr_male=0;nhomalt_asj=0;nhomalt_asj_female=0;nhomalt_asj_male=0;nhomalt_eas=0;nhomalt_eas_female=0;nhomalt_eas_jpn=0;nhomalt_eas_kor=0;nhomalt_eas_male=0;nhomalt_eas_oea=0;nhomalt_female=0;nhomalt_fin=0;nhomalt_fin_female=0;nhomalt_fin_male=0;nhomalt_male=0;nhomalt_nfe=0;nhomalt_nfe_bgr=0;nhomalt_nfe_est=0;nhomalt_nfe_female=0;nhomalt_nfe_male=0;nhomalt_nfe_nwe=0;nhomalt_nfe_onf=0;nhomalt_nfe_seu=0;nhomalt_nfe_swe=0;nhomalt_oth=0;nhomalt_oth_female=0;nhomalt_oth_male=0;nhomalt_popmax=0;nhomalt_raw=0;nhomalt_sas=0;nhomalt_sas_female=0;nhomalt_sas_male=0;non_cancer_AC=1;non_cancer_AC_afr=0;non_cancer_AC_afr_female=0;non_cancer_AC_afr_male=0;non_cancer_AC_amr=1;non_cancer_AC_amr_female=0;non_cancer_AC_amr_male=1;non_cancer_AC_asj=0;non_cancer_AC_asj_female=0;non_cancer_AC_asj_male=0;non_cancer_AC_eas=0;non_cancer_AC_eas_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AC_eas_kor=0;non_cancer_AC_eas_male=0;non_cancer_AC_eas_oea=0;non_cancer_AC_female=0;non_cancer_AC_fin=0;non_cancer_AC_fin_female=0;non_cancer_AC_fin_male=0;non_cancer_AC_male=1;non_cancer_AC_nfe=0;non_cancer_AC_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AC_nfe_female=0;non_cancer_AC_nfe_male=0;non_cancer_AC_nfe_nwe=0;non_cancer_AC_nfe_onf=0;non_cancer_AC_nfe_seu=0;non_cancer_AC_nfe_swe=0;non_cancer_AC_oth=0;non_cancer_AC_oth_female=0;non_cancer_AC_oth_male=0;non_cancer_AC_popmax=1;non_cancer_AC_raw=1;non_cancer_AC_sas=0;non_cancer_AC_sas_female=0;non_cancer_AC_sas_male=0;non_cancer_AF=4.27394e-06;non_cancer_AF_afr=0.00000e+00;non_cancer_AF_afr_female=0.00000e+00;non_cancer_AF_afr_male=0.00000e+00;non_cancer_AF_amr=2.96279e-05;non_cancer_AF_amr_female=0.00000e+00;non_cancer_AF_amr_male=7.16332e-05;non_cancer_AF_asj=0.00000e+00;non_cancer_AF_asj_female=0.00000e+00;non_cancer_AF_asj_male=0.00000e+00;non_cancer_AF_eas=0.00000e+00;non_cancer_AF_eas_female=0.00000e+00;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_AF_eas_kor=0.00000e+00;non_cancer_AF_eas_male=0.00000e+00;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_AF_female=0.00000e+00;non_cancer_AF_fin=0.00000e+00;non_cancer_AF_fin_female=0.00000e+00;non_cancer_AF_fin_male=0.00000e+00;non_cancer_AF_male=7.79958e-06;non_cancer_AF_nfe=0.00000e+00;non_cancer_AF_nfe_bgr=0.00000e+00;non_cancer_AF_nfe_est=0.00000e+00;non_cancer_AF_nfe_female=0.00000e+00;non_cancer_AF_nfe_male=0.00000e+00;non_cancer_AF_nfe_nwe=0.00000e+00;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_AF_nfe_swe=0.00000e+00;non_cancer_AF_oth=0.00000e+00;non_cancer_AF_oth_female=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_popmax=2.96279e-05;non_cancer_AF_raw=4.24628e-06;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_female=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=233976;non_cancer_AN_afr=14102;non_cancer_AN_afr_female=8450;non_cancer_AN_afr_male=5652;non_cancer_AN_amr=33752;non_cancer_AN_amr_female=19792;non_cancer_AN_amr_male=13960;non_cancer_AN_asj=9540;non_cancer_AN_asj_female=4576;non_cancer_AN_asj_male=4964;non_cancer_AN_eas=17242;non_cancer_AN_eas_female=8730;non_cancer_AN_eas_jpn=104;non_cancer_AN_eas_kor=3770;non_cancer_AN_eas_male=8512;non_cancer_AN_eas_oea=13368;non_cancer_AN_female=105764;non_cancer_AN_fin=21492;non_cancer_AN_fin_female=10270;non_cancer_AN_fin_male=11222;non_cancer_AN_male=128212;non_cancer_AN_nfe=101996;non_cancer_AN_nfe_bgr=2520;non_cancer_AN_nfe_est=158;non_cancer_AN_nfe_female=43888;non_cancer_AN_nfe_male=58108;non_cancer_AN_nfe_nwe=39130;non_cancer_AN_nfe_onf=24418;non_cancer_AN_nfe_seu=10510;non_cancer_AN_nfe_swe=25260;non_cancer_AN_oth=5496;non_cancer_AN_oth_female=2608;non_cancer_AN_oth_male=2888;non_cancer_AN_popmax=33752;non_cancer_AN_raw=235500;non_cancer_AN_sas=30356;non_cancer_AN_sas_female=7450;non_cancer_AN_sas_male=22906;non_cancer_faf95=0.00000e+00;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=1.00000e-06;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=0.00000e+00;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=1.00000e-06;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_popmax=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_cancer_popmax=amr;non_neuro_AC=1;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=1;non_neuro_AC_amr_female=0;non_neuro_AC_amr_male=1;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=0;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=1;non_neuro_AC_nfe=0;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=0;non_neuro_AC_nfe_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=0;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=1;non_neuro_AC_raw=1;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF=4.87087e-06;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_female=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=3.32845e-05;non_neuro_AF_amr_female=0.00000e+00;non_neuro_AF_amr_male=8.29600e-05;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_female=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=0.00000e+00;non_neuro_AF_eas_female=0.00000e+00;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_AF_eas_male=0.00000e+00;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_female=0.00000e+00;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_female=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=8.96764e-06;non_neuro_AF_nfe=0.00000e+00;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_female=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=3.32845e-05;non_neuro_AF_raw=4.83788e-06;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_female=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=205302;non_neuro_AN_afr=15418;non_neuro_AN_afr_female=9272;non_neuro_AN_afr_male=6146;non_neuro_AN_amr=30044;non_neuro_AN_amr_female=17990;non_neuro_AN_amr_male=12054;non_neuro_AN_asj=6186;non_neuro_AN_asj_female=3068;non_neuro_AN_asj_male=3118;non_neuro_AN_eas=12964;non_neuro_AN_eas_female=6620;non_neuro_AN_eas_jpn=130;non_neuro_AN_eas_kor=3812;non_neuro_AN_eas_male=6344;non_neuro_AN_eas_oea=9022;non_neuro_AN_female=93790;non_neuro_AN_fin=16606;non_neuro_AN_fin_female=7570;non_neuro_AN_fin_male=9036;non_neuro_AN_male=111512;non_neuro_AN_nfe=88890;non_neuro_AN_nfe_bgr=446;non_neuro_AN_nfe_est=216;non_neuro_AN_nfe_female=39452;non_neuro_AN_nfe_male=49438;non_neuro_AN_nfe_nwe=35032;non_neuro_AN_nfe_onf=27598;non_neuro_AN_nfe_seu=10848;non_neuro_AN_nfe_swe=14750;non_neuro_AN_oth=4756;non_neuro_AN_oth_female=2320;non_neuro_AN_oth_male=2436;non_neuro_AN_popmax=30044;non_neuro_AN_raw=206702;non_neuro_AN_sas=30438;non_neuro_AN_sas_female=7498;non_neuro_AN_sas_male=22940;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=1.00000e-06;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=1.00000e-06;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=amr;non_topmed_AC=1;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=1;non_topmed_AC_amr_female=0;non_topmed_AC_amr_male=1;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=0;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=1;non_topmed_AC_nfe=0;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=0;non_topmed_AC_nfe_male=0;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=1;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=4.13209e-06;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_female=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=2.94533e-05;non_topmed_AF_amr_female=0.00000e+00;non_topmed_AF_amr_male=7.11744e-05;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_female=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_female=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_female=0.00000e+00;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_female=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=7.54626e-06;non_topmed_AF_nfe=0.00000e+00;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_female=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=2.94533e-05;non_topmed_AF_raw=4.10705e-06;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_female=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=242008;non_topmed_AN_afr=11324;non_topmed_AN_afr_female=6658;non_topmed_AN_afr_male=4666;non_topmed_AN_amr=33952;non_topmed_AN_amr_female=19902;non_topmed_AN_amr_male=14050;non_topmed_AN_asj=9966;non_topmed_AN_asj_female=4834;non_topmed_AN_asj_male=5132;non_topmed_AN_eas=17932;non_topmed_AN_eas_female=9102;non_topmed_AN_eas_jpn=132;non_topmed_AN_eas_kor=3814;non_topmed_AN_eas_male=8830;non_topmed_AN_eas_oea=13986;non_topmed_AN_female=109492;non_topmed_AN_fin=21506;non_topmed_AN_fin_female=10280;non_topmed_AN_fin_male=11226;non_topmed_AN_male=132516;non_topmed_AN_nfe=110930;non_topmed_AN_nfe_bgr=2656;non_topmed_AN_nfe_est=238;non_topmed_AN_nfe_female=48404;non_topmed_AN_nfe_male=62526;non_topmed_AN_nfe_nwe=40734;non_topmed_AN_nfe_onf=29954;non_topmed_AN_nfe_seu=11306;non_topmed_AN_nfe_swe=26042;non_topmed_AN_oth=5952;non_topmed_AN_oth_female=2812;non_topmed_AN_oth_male=3140;non_topmed_AN_popmax=33952;non_topmed_AN_raw=243484;non_topmed_AN_sas=30446;non_topmed_AN_sas_female=7500;non_topmed_AN_sas_male=22946;non_topmed_faf95=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf95_amr=1.00000e-06;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;non_topmed_faf99_amr=1.00000e-06;non_topmed_faf99_eas=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_female=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_female=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_female=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_female=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_female=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_female=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_female=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_popmax=0;non_topmed_nhomalt_raw=0;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;non_topmed_popmax=amr;pab_max=3.32306e-01;popmax=amr;rf_tp_probability=5.82280e-01;variant_type=snv;vep=T|3_prime_UTR_variant|MODIFIER|FAM110C|ENSG00000184731|Transcript|ENST00000327669|protein_coding|2/2||ENST00000327669.4:c.*39C>A||1005||||||1||-1||SNV|1|HGNC|33340|YES|||CCDS42645.1|ENSP00000328347|Q1W6H9||UPI0000579458||||||||||||||||||||||||||||||||||,T|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|FAM110C|ENSG00000184731|Transcript|ENST00000460464|processed_transcript|2/2||ENST00000460464.1:n.203C>A||203||||||1||-1||SNV|1|HGNC|33340||||||||||||||||||||||||||||||||||||||||||,T|non_coding_transcript_exon_variant&non_coding_transcript_variant|MODIFIER|FAM110C|ENSG00000184731|Transcript|ENST00000461026|processed_transcript|2/2||ENST00000461026.1:n.123C>A||123||||||1||-1||SNV|1|HGNC|33340|||||||||||||||||||||||||||||||||||||||||| +chr2 41574 rs1442794729 C T 594.25 PASS AC=2;AC_afr=0;AC_afr_female=0;AC_afr_male=0;AC_amr=2;AC_amr_female=1;AC_amr_male=1;AC_asj=0;AC_asj_female=0;AC_asj_male=0;AC_eas=0;AC_eas_female=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_female=1;AC_fin=0;AC_fin_female=0;AC_fin_male=0;AC_male=1;AC_nfe=0;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_female=0;AC_nfe_male=0;AC_nfe_nwe=0;AC_nfe_onf=0;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_female=0;AC_oth_male=0;AC_popmax=2;AC_raw=2;AC_sas=0;AC_sas_female=0;AC_sas_male=0;AF=8.04473e-06;AF_afr=0.00000e+00;AF_afr_female=0.00000e+00;AF_afr_male=0.00000e+00;AF_amr=5.85446e-05;AF_amr_female=4.99550e-05;AF_amr_male=7.07014e-05;AF_asj=0.00000e+00;AF_asj_female=0.00000e+00;AF_asj_male=0.00000e+00;AF_eas=0.00000e+00;AF_eas_female=0.00000e+00;AF_eas_jpn=0.00000e+00;AF_eas_kor=0.00000e+00;AF_eas_male=0.00000e+00;AF_eas_oea=0.00000e+00;AF_female=8.79523e-06;AF_fin=0.00000e+00;AF_fin_female=0.00000e+00;AF_fin_male=0.00000e+00;AF_male=7.41224e-06;AF_nfe=0.00000e+00;AF_nfe_bgr=0.00000e+00;AF_nfe_est=0.00000e+00;AF_nfe_female=0.00000e+00;AF_nfe_male=0.00000e+00;AF_nfe_nwe=0.00000e+00;AF_nfe_onf=0.00000e+00;AF_nfe_seu=0.00000e+00;AF_nfe_swe=0.00000e+00;AF_oth=0.00000e+00;AF_oth_female=0.00000e+00;AF_oth_male=0.00000e+00;AF_popmax=5.85446e-05;AF_raw=7.99974e-06;AF_sas=0.00000e+00;AF_sas_female=0.00000e+00;AF_sas_male=0.00000e+00;AN=248610;AN_afr=15474;AN_afr_female=9302;AN_afr_male=6172;AN_amr=34162;AN_amr_female=20018;AN_amr_male=14144;AN_asj=10054;AN_asj_female=4882;AN_asj_male=5172;AN_eas=17938;AN_eas_female=9104;AN_eas_jpn=132;AN_eas_kor=3812;AN_eas_male=8834;AN_eas_oea=13994;AN_female=113698;AN_fin=21512;AN_fin_female=10282;AN_fin_male=11230;AN_male=134912;AN_nfe=113014;AN_nfe_bgr=2664;AN_nfe_est=242;AN_nfe_female=49744;AN_nfe_male=63270;AN_nfe_nwe=41876;AN_nfe_onf=30738;AN_nfe_seu=11394;AN_nfe_swe=26100;AN_oth=6014;AN_oth_female=2854;AN_oth_male=3160;AN_popmax=34162;AN_raw=250008;AN_sas=30442;AN_sas_female=7512;AN_sas_male=22930;BaseQRankSum=2.31000e+00;ClippingRankSum=-1.07000e-01;DP=7794663;FS=7.85200e+00;InbreedingCoeff=1.40000e-03;MQ=6.00000e+01;MQRankSum=-6.71000e-01;OriginalContig=2;OriginalStart=41574;QD=1.04300e+01;ReadPosRankSum=4.66000e-01;SOR=1.93000e-01;VQSLOD=-1.14600e-01;VQSR_culprit=MQ;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|1|0|1|0|1|0|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|1|0|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=2;controls_AC_afr=0;controls_AC_afr_female=0;controls_AC_afr_male=0;controls_AC_amr=2;controls_AC_amr_female=1;controls_AC_amr_male=1;controls_AC_asj=0;controls_AC_asj_female=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_female=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_female=1;controls_AC_fin=0;controls_AC_fin_female=0;controls_AC_fin_male=0;controls_AC_male=1;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_female=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_female=0;controls_AC_oth_male=0;controls_AC_popmax=2;controls_AC_raw=2;controls_AC_sas=0;controls_AC_sas_female=0;controls_AC_sas_male=0;controls_AF=1.84822e-05;controls_AF_afr=0.00000e+00;controls_AF_afr_female=0.00000e+00;controls_AF_afr_male=0.00000e+00;controls_AF_amr=1.18666e-04;controls_AF_amr_female=9.91080e-05;controls_AF_amr_male=1.47842e-04;controls_AF_asj=0.00000e+00;controls_AF_asj_female=0.00000e+00;controls_AF_asj_male=0.00000e+00;controls_AF_eas=0.00000e+00;controls_AF_eas_female=0.00000e+00;controls_AF_eas_jpn=0.00000e+00;controls_AF_eas_kor=0.00000e+00;controls_AF_eas_male=0.00000e+00;controls_AF_eas_oea=0.00000e+00;controls_AF_female=1.97324e-05;controls_AF_fin=0.00000e+00;controls_AF_fin_female=0.00000e+00;controls_AF_fin_male=0.00000e+00;controls_AF_male=1.73810e-05;controls_AF_nfe=0.00000e+00;controls_AF_nfe_bgr=0.00000e+00;controls_AF_nfe_est=0.00000e+00;controls_AF_nfe_female=0.00000e+00;controls_AF_nfe_male=0.00000e+00;controls_AF_nfe_nwe=0.00000e+00;controls_AF_nfe_onf=0.00000e+00;controls_AF_nfe_seu=0.00000e+00;controls_AF_nfe_swe=0.00000e+00;controls_AF_oth=0.00000e+00;controls_AF_oth_female=0.00000e+00;controls_AF_oth_male=0.00000e+00;controls_AF_popmax=1.18666e-04;controls_AF_raw=1.83797e-05;controls_AF_sas=0.00000e+00;controls_AF_sas_female=0.00000e+00;controls_AF_sas_male=0.00000e+00;controls_AN=108212;controls_AN_afr=7134;controls_AN_afr_female=4216;controls_AN_afr_male=2918;controls_AN_amr=16854;controls_AN_amr_female=10090;controls_AN_amr_male=6764;controls_AN_asj=2314;controls_AN_asj_female=1210;controls_AN_asj_male=1104;controls_AN_eas=8618;controls_AN_eas_female=4584;controls_AN_eas_jpn=94;controls_AN_eas_kor=1886;controls_AN_eas_male=4034;controls_AN_eas_oea=6638;controls_AN_female=50678;controls_AN_fin=13272;controls_AN_fin_female=6392;controls_AN_fin_male=6880;controls_AN_male=57534;controls_AN_nfe=42530;controls_AN_nfe_bgr=678;controls_AN_nfe_est=70;controls_AN_nfe_female=19018;controls_AN_nfe_male=23512;controls_AN_nfe_nwe=14342;controls_AN_nfe_onf=9946;controls_AN_nfe_seu=4688;controls_AN_nfe_swe=12806;controls_AN_oth=1878;controls_AN_oth_female=972;controls_AN_oth_male=906;controls_AN_popmax=16854;controls_AN_raw=108816;controls_AN_sas=15612;controls_AN_sas_female=4196;controls_AN_sas_male=11416;controls_faf95=3.07000e-06;controls_faf95_afr=0.00000e+00;controls_faf95_amr=2.06000e-05;controls_faf95_eas=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99=3.15000e-06;controls_faf99_afr=0.00000e+00;controls_faf99_amr=2.03200e-05;controls_faf99_eas=0.00000e+00;controls_faf99_nfe=0.00000e+00;controls_faf99_sas=0.00000e+00;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_female=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_female=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_female=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_female=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_female=0;controls_nhomalt_fin=0;controls_nhomalt_fin_female=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_female=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_female=0;controls_nhomalt_oth_male=0;controls_nhomalt_popmax=0;controls_nhomalt_raw=0;controls_nhomalt_sas=0;controls_nhomalt_sas_female=0;controls_nhomalt_sas_male=0;controls_popmax=amr;dp_hist_all_bin_freq=1262|455|2798|8857|18126|16238|17123|20171|22606|19464|10997|6665|4690|3439|2423|1812|1387|1027|864|725;dp_hist_all_n_larger=3203;dp_hist_alt_bin_freq=0|0|1|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=1.34000e-06;faf95_afr=0.00000e+00;faf95_amr=9.70000e-06;faf95_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf95_sas=0.00000e+00;faf99=5.00000e-07;faf99_afr=0.00000e+00;faf99_amr=9.63000e-06;faf99_eas=0.00000e+00;faf99_nfe=0.00000e+00;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=244|122|67|147|329|335|996|1741|1429|3480|4859|3063|10769|2844|7660|3512|9261|1098|8070|103360;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|3;n_alt_alleles=1;nhomalt=0;nhomalt_afr=0;nhomalt_afr_female=0;nhomalt_afr_male=0;nhomalt_amr=0;nhomalt_amr_female=0;nhomalt_amr_male=0;nhomalt_asj=0;nhomalt_asj_female=0;nhomalt_asj_male=0;nhomalt_eas=0;nhomalt_eas_female=0;nhomalt_eas_jpn=0;nhomalt_eas_kor=0;nhomalt_eas_male=0;nhomalt_eas_oea=0;nhomalt_female=0;nhomalt_fin=0;nhomalt_fin_female=0;nhomalt_fin_male=0;nhomalt_male=0;nhomalt_nfe=0;nhomalt_nfe_bgr=0;nhomalt_nfe_est=0;nhomalt_nfe_female=0;nhomalt_nfe_male=0;nhomalt_nfe_nwe=0;nhomalt_nfe_onf=0;nhomalt_nfe_seu=0;nhomalt_nfe_swe=0;nhomalt_oth=0;nhomalt_oth_female=0;nhomalt_oth_male=0;nhomalt_popmax=0;nhomalt_raw=0;nhomalt_sas=0;nhomalt_sas_female=0;nhomalt_sas_male=0;non_cancer_AC=2;non_cancer_AC_afr=0;non_cancer_AC_afr_female=0;non_cancer_AC_afr_male=0;non_cancer_AC_amr=2;non_cancer_AC_amr_female=1;non_cancer_AC_amr_male=1;non_cancer_AC_asj=0;non_cancer_AC_asj_female=0;non_cancer_AC_asj_male=0;non_cancer_AC_eas=0;non_cancer_AC_eas_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AC_eas_kor=0;non_cancer_AC_eas_male=0;non_cancer_AC_eas_oea=0;non_cancer_AC_female=1;non_cancer_AC_fin=0;non_cancer_AC_fin_female=0;non_cancer_AC_fin_male=0;non_cancer_AC_male=1;non_cancer_AC_nfe=0;non_cancer_AC_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AC_nfe_female=0;non_cancer_AC_nfe_male=0;non_cancer_AC_nfe_nwe=0;non_cancer_AC_nfe_onf=0;non_cancer_AC_nfe_seu=0;non_cancer_AC_nfe_swe=0;non_cancer_AC_oth=0;non_cancer_AC_oth_female=0;non_cancer_AC_oth_male=0;non_cancer_AC_popmax=2;non_cancer_AC_raw=2;non_cancer_AC_sas=0;non_cancer_AC_sas_female=0;non_cancer_AC_sas_male=0;non_cancer_AF=8.54401e-06;non_cancer_AF_afr=0.00000e+00;non_cancer_AF_afr_female=0.00000e+00;non_cancer_AF_afr_male=0.00000e+00;non_cancer_AF_amr=5.91191e-05;non_cancer_AF_amr_female=5.04185e-05;non_cancer_AF_amr_male=7.14490e-05;non_cancer_AF_asj=0.00000e+00;non_cancer_AF_asj_female=0.00000e+00;non_cancer_AF_asj_male=0.00000e+00;non_cancer_AF_eas=0.00000e+00;non_cancer_AF_eas_female=0.00000e+00;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_AF_eas_kor=0.00000e+00;non_cancer_AF_eas_male=0.00000e+00;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_AF_female=9.44876e-06;non_cancer_AF_fin=0.00000e+00;non_cancer_AF_fin_female=0.00000e+00;non_cancer_AF_fin_male=0.00000e+00;non_cancer_AF_male=7.79739e-06;non_cancer_AF_nfe=0.00000e+00;non_cancer_AF_nfe_bgr=0.00000e+00;non_cancer_AF_nfe_est=0.00000e+00;non_cancer_AF_nfe_female=0.00000e+00;non_cancer_AF_nfe_male=0.00000e+00;non_cancer_AF_nfe_nwe=0.00000e+00;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_AF_nfe_swe=0.00000e+00;non_cancer_AF_oth=0.00000e+00;non_cancer_AF_oth_female=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_popmax=5.91191e-05;non_cancer_AF_raw=8.49336e-06;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_female=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=234082;non_cancer_AN_afr=14122;non_cancer_AN_afr_female=8464;non_cancer_AN_afr_male=5658;non_cancer_AN_amr=33830;non_cancer_AN_amr_female=19834;non_cancer_AN_amr_male=13996;non_cancer_AN_asj=9546;non_cancer_AN_asj_female=4578;non_cancer_AN_asj_male=4968;non_cancer_AN_eas=17244;non_cancer_AN_eas_female=8732;non_cancer_AN_eas_jpn=104;non_cancer_AN_eas_kor=3768;non_cancer_AN_eas_male=8512;non_cancer_AN_eas_oea=13372;non_cancer_AN_female=105834;non_cancer_AN_fin=21496;non_cancer_AN_fin_female=10270;non_cancer_AN_fin_male=11226;non_cancer_AN_male=128248;non_cancer_AN_nfe=101998;non_cancer_AN_nfe_bgr=2520;non_cancer_AN_nfe_est=158;non_cancer_AN_nfe_female=43886;non_cancer_AN_nfe_male=58112;non_cancer_AN_nfe_nwe=39156;non_cancer_AN_nfe_onf=24406;non_cancer_AN_nfe_seu=10502;non_cancer_AN_nfe_swe=25256;non_cancer_AN_oth=5494;non_cancer_AN_oth_female=2608;non_cancer_AN_oth_male=2886;non_cancer_AN_popmax=33830;non_cancer_AN_raw=235478;non_cancer_AN_sas=30352;non_cancer_AN_sas_female=7462;non_cancer_AN_sas_male=22890;non_cancer_faf95=1.42000e-06;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=9.79000e-06;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=5.30000e-07;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=9.66000e-06;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_popmax=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_cancer_popmax=amr;non_neuro_AC=2;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=2;non_neuro_AC_amr_female=1;non_neuro_AC_amr_male=1;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=1;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=1;non_neuro_AC_nfe=0;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=0;non_neuro_AC_nfe_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=0;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=2;non_neuro_AC_raw=2;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF=9.73729e-06;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_female=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=6.64143e-05;non_neuro_AF_amr_female=5.54693e-05;non_neuro_AF_amr_male=8.27404e-05;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_female=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=0.00000e+00;non_neuro_AF_eas_female=0.00000e+00;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_AF_eas_male=0.00000e+00;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_female=1.06546e-05;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_female=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=8.96539e-06;non_neuro_AF_nfe=0.00000e+00;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_female=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=6.64143e-05;non_neuro_AF_raw=9.67651e-06;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_female=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=205396;non_neuro_AN_afr=15438;non_neuro_AN_afr_female=9286;non_neuro_AN_afr_male=6152;non_neuro_AN_amr=30114;non_neuro_AN_amr_female=18028;non_neuro_AN_amr_male=12086;non_neuro_AN_asj=6192;non_neuro_AN_asj_female=3072;non_neuro_AN_asj_male=3120;non_neuro_AN_eas=12966;non_neuro_AN_eas_female=6622;non_neuro_AN_eas_jpn=130;non_neuro_AN_eas_kor=3810;non_neuro_AN_eas_male=6344;non_neuro_AN_eas_oea=9026;non_neuro_AN_female=93856;non_neuro_AN_fin=16606;non_neuro_AN_fin_female=7566;non_neuro_AN_fin_male=9040;non_neuro_AN_male=111540;non_neuro_AN_nfe=88890;non_neuro_AN_nfe_bgr=446;non_neuro_AN_nfe_est=216;non_neuro_AN_nfe_female=39452;non_neuro_AN_nfe_male=49438;non_neuro_AN_nfe_nwe=35056;non_neuro_AN_nfe_onf=27586;non_neuro_AN_nfe_seu=10840;non_neuro_AN_nfe_swe=14746;non_neuro_AN_oth=4756;non_neuro_AN_oth_female=2320;non_neuro_AN_oth_male=2436;non_neuro_AN_popmax=30114;non_neuro_AN_raw=206686;non_neuro_AN_sas=30434;non_neuro_AN_sas_female=7510;non_neuro_AN_sas_male=22924;non_neuro_faf95=1.62000e-06;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=1.10000e-05;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=1.61000e-06;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=1.11100e-05;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=amr;non_topmed_AC=2;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=2;non_topmed_AC_amr_female=1;non_topmed_AC_amr_male=1;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=1;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=1;non_topmed_AC_nfe=0;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=0;non_topmed_AC_nfe_male=0;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=2;non_topmed_AC_raw=2;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=8.26057e-06;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_female=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=5.87717e-05;non_topmed_AF_amr_female=5.01404e-05;non_topmed_AF_amr_male=7.09925e-05;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_female=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_female=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_female=9.12725e-06;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_female=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=7.54421e-06;non_topmed_AF_nfe=0.00000e+00;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_female=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=5.87717e-05;non_topmed_AF_raw=8.21483e-06;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_female=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=242114;non_topmed_AN_afr=11344;non_topmed_AN_afr_female=6672;non_topmed_AN_afr_male=4672;non_topmed_AN_amr=34030;non_topmed_AN_amr_female=19944;non_topmed_AN_amr_male=14086;non_topmed_AN_asj=9972;non_topmed_AN_asj_female=4836;non_topmed_AN_asj_male=5136;non_topmed_AN_eas=17934;non_topmed_AN_eas_female=9104;non_topmed_AN_eas_jpn=132;non_topmed_AN_eas_kor=3812;non_topmed_AN_eas_male=8830;non_t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n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;FS=7.29887;MQ=34.8175;MQRankSum=0.0670000;QD=2.74286;ReadPosRankSum=-1.06700;VarDP=35;QUALapprox=96;AS_FS=5.09715;AS_MQ=35.0722;AS_MQRankSum=-0.572000;AS_pab_max=0.687500;AS_QD=2.96154;AS_ReadPosRankSum=-1.38000;AS_SOR=0.0964365;InbreedingCoeff=-1.65701e-05;AS_SB_TABLE=21,6|3,3;AS_VQSLOD=-4.56860;AS_culprit=AS_QD;allele_type=snv;n_alt_alleles=2;variant_type=multi-snv;lcr;segdup;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=0|0|0|0|23215|2435|1647|594|176|118|49|29|19|9|11|6|5|2|4|2;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=0|0|16|121|475|973|1736|2409|2950|3134|2995|2803|2514|2194|1773|1335|911|665|439|351;dp_hist_all_n_smaller=0;dp_hist_all_n_larger=527;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;cadd_raw_score=0.756535;cadd_phred=8.97300;vep=C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene||||||||||1|1979|1|SNV||HGNC|HGNC:37102|||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript||||||||||1|1838|1|SNV||HGNC|HGNC:37102|YES|1|||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene||||||||||1|4373|-1|SNV||HGNC|HGNC:38034|YES||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|653635|Transcript|NR_024540.1|transcribed_pseudogene||||||||||1|4331|-1|SNV||EntrezGene|HGNC:38034|YES||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|100287102|Transcript|NR_046018.2|transcribed_pseudogene||||||||||1|1843|1|SNV||EntrezGene|HGNC:37102|YES||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00000344264|CTCF_binding_site||||||||||1|||SNV|||||||||||||||||||||||| +chr1 10037 . T C . AS_VQSR 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.00000;faf99_sas=0.00000;faf95_eas=0.00000;faf99_eas=0.00000;faf95_amr=0.00000;faf99_amr=0.00000;faf95_afr=0.00000;faf99_afr=0.00000;faf95=4.32000e-06;faf99=1.62000e-06;faf95_nfe=0.00000;faf99_nfe=0.00000;age_hist_het_bin_freq=0|1|0|0|1|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;FS=8.58284;MQ=38.3115;MQRankSum=1.37100;QD=2.19512;ReadPosRankSum=-0.480000;VarDP=82;QUALapprox=180;AS_FS=8.58284;AS_MQ=38.3115;AS_MQRankSum=1.37100;AS_pab_max=1.00000;AS_QD=2.19512;AS_ReadPosRankSum=-0.480000;AS_SOR=0.151497;InbreedingCoeff=-3.14713e-05;AS_SB_TABLE=49,12|13,8;AS_VQSLOD=-3.17980;AS_culprit=AS_QD;allele_type=snv;n_alt_alleles=1;variant_type=snv;lcr;segdup;gq_hist_alt_bin_freq=0|0|0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=0|0|0|0|29394|3741|2868|1281|401|358|163|63|69|31|18|20|10|4|5|15;dp_hist_alt_bin_freq=0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=0|0|9|69|387|913|1737|2859|3749|4216|4302|4223|3745|3280|2661|1954|1380|943|607|519;dp_hist_all_n_smaller=0;dp_hist_all_n_larger=888;ab_hist_alt_bin_freq=0|0|0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0;cadd_raw_score=0.748894;cadd_phred=8.90200;vep=C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene||||||||||1|1973|1|SNV||HGNC|HGNC:37102|||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript||||||||||1|1832|1|SNV||HGNC|HGNC:37102|YES|1|||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene||||||||||1|4367|-1|SNV||HGNC|HGNC:38034|YES||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|653635|Transcript|NR_024540.1|transcribed_pseudogene||||||||||1|4325|-1|SNV||EntrezGene|HGNC:38034|YES||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|100287102|Transcript|NR_046018.2|transcribed_pseudogene||||||||||1|1837|1|SNV||EntrezGene|HGNC:37102|YES||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00000344264|CTCF_binding_site||||||||||1|||SNV|||||||||||||||||||||||| +chr1 10043 . T C . AS_VQSR 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+chr2 10188 rs550428710 C A . AC0 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CCCCTAACCCCTAACCCTAACCCTACCCGAACCCTAACCCTAA C . 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n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;FS=7.29887;MQ=34.8175;MQRankSum=0.0670000;QD=2.74286;ReadPosRankSum=-1.06700;VarDP=35;QUALapprox=96;AS_FS=5.09715;AS_MQ=35.0722;AS_MQRankSum=-0.572000;AS_pab_max=0.687500;AS_QD=2.96154;AS_ReadPosRankSum=-1.38000;AS_SOR=0.0964365;InbreedingCoeff=-1.65701e-05;AS_SB_TABLE=21,6|3,3;AS_VQSLOD=-4.56860;AS_culprit=AS_QD;allele_type=snv;n_alt_alleles=2;variant_type=multi-snv;lcr;segdup;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=0|0|0|0|23215|2435|1647|594|176|118|49|29|19|9|11|6|5|2|4|2;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=0|0|16|121|475|973|1736|2409|2950|3134|2995|2803|2514|2194|1773|1335|911|665|439|351;dp_hist_all_n_smaller=0;dp_hist_all_n_larger=527;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;cadd_raw_score=0.756535;cadd_phred=8.97300;vep=C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene||||||||||1|1979|1|SNV||HGNC|HGNC:37102|||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript||||||||||1|1838|1|SNV||HGNC|HGNC:37102|YES|1|||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene||||||||||1|4373|-1|SNV||HGNC|HGNC:38034|YES||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|653635|Transcript|NR_024540.1|transcribed_pseudogene||||||||||1|4331|-1|SNV||EntrezGene|HGNC:38034|YES||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|100287102|Transcript|NR_046018.2|transcribed_pseudogene||||||||||1|1843|1|SNV||EntrezGene|HGNC:37102|YES||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00000344264|CTCF_binding_site||||||||||1|||SNV|||||||||||||||||||||||| +chr1 10037 . T C . AS_VQSR 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.00000;faf99_sas=0.00000;faf95_eas=0.00000;faf99_eas=0.00000;faf95_amr=0.00000;faf99_amr=0.00000;faf95_afr=0.00000;faf99_afr=0.00000;faf95=4.32000e-06;faf99=1.62000e-06;faf95_nfe=0.00000;faf99_nfe=0.00000;age_hist_het_bin_freq=0|1|0|0|1|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;FS=8.58284;MQ=38.3115;MQRankSum=1.37100;QD=2.19512;ReadPosRankSum=-0.480000;VarDP=82;QUALapprox=180;AS_FS=8.58284;AS_MQ=38.3115;AS_MQRankSum=1.37100;AS_pab_max=1.00000;AS_QD=2.19512;AS_ReadPosRankSum=-0.480000;AS_SOR=0.151497;InbreedingCoeff=-3.14713e-05;AS_SB_TABLE=49,12|13,8;AS_VQSLOD=-3.17980;AS_culprit=AS_QD;allele_type=snv;n_alt_alleles=1;variant_type=snv;lcr;segdup;gq_hist_alt_bin_freq=0|0|0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=0|0|0|0|29394|3741|2868|1281|401|358|163|63|69|31|18|20|10|4|5|15;dp_hist_alt_bin_freq=0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=0|0|9|69|387|913|1737|2859|3749|4216|4302|4223|3745|3280|2661|1954|1380|943|607|519;dp_hist_all_n_smaller=0;dp_hist_all_n_larger=888;ab_hist_alt_bin_freq=0|0|0|0|1|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0;cadd_raw_score=0.748894;cadd_phred=8.90200;vep=C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000450305|transcribed_unprocessed_pseudogene||||||||||1|1973|1|SNV||HGNC|HGNC:37102|||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|ENSG00000223972|Transcript|ENST00000456328|processed_transcript||||||||||1|1832|1|SNV||HGNC|HGNC:37102|YES|1|||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|ENSG00000227232|Transcript|ENST00000488147|unprocessed_pseudogene||||||||||1|4367|-1|SNV||HGNC|HGNC:38034|YES||||||||||||||||||||,C|downstream_gene_variant|MODIFIER|WASH7P|653635|Transcript|NR_024540.1|transcribed_pseudogene||||||||||1|4325|-1|SNV||EntrezGene|HGNC:38034|YES||||||||||||||||||||,C|upstream_gene_variant|MODIFIER|DDX11L1|100287102|Transcript|NR_046018.2|transcribed_pseudogene||||||||||1|1837|1|SNV||EntrezGene|HGNC:37102|YES||||||||||||||||||||,C|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00000344264|CTCF_binding_site||||||||||1|||SNV|||||||||||||||||||||||| +chr1 10043 . T C . AS_VQSR 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+chr2 10188 rs550428710 C A . AC0 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CCCCTAACCCCTAACCCTAACCCTACCCGAACCCTAACCCTAA C . 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diff --git a/tests/data/db/create/seqvar_freqs/mt/gnomad.chrM.vcf b/tests/data/db/create/seqvar_freqs/mt/gnomad.chrM.vcf new file mode 100644 index 00000000..8951a9b2 --- /dev/null +++ b/tests/data/db/create/seqvar_freqs/mt/gnomad.chrM.vcf @@ -0,0 +1,65 @@ +##fileformat=VCFv4.2 +##hailversion=0.2.61-3c86d3ba497a +##FILTER= +##FILTER= +##FILTER= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= 0 and < 0.50 (includes variants <0.01 heteroplasmy which are subsequently filtered)"> +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO== 0.95"> +##INFO== 0.10 and < 0.95"> +##INFO= +##INFO= +##INFO= +##INFO= +##INFO== 0.95"> +##INFO== 0.10 and < 0.95"> +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##INFO= +##VEP version=v101 +##dbSNP version=b154 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|||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +X 200808 rs764715109 C G 3817.77 PASS AC=1;AN=249706;AF=4.00471e-06;rf_tp_probability=7.29954e-01;FS=5.64100e+00;InbreedingCoeff=6.30000e-03;MQ=5.99600e+01;MQRankSum=-5.13000e-01;QD=1.04000e+01;ReadPosRankSum=1.13000e+00;SOR=1.11400e+00;BaseQRankSum=1.03000e-01;ClippingRankSum=-1.54000e-01;DP=12097154;VQSLOD=-7.25700e-01;VQSR_culprit=MQ;segdup;variant_type=multi-snv;allele_type=snv;n_alt_alleles=3;pab_max=9.47934e-06;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1;gq_hist_all_bin_freq=89|136|98|207|329|328|849|1505|1085|2810|3619|2325|6351|3431|4031|3672|5512|1514|4846|82911;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=1;dp_hist_all_bin_freq=323|429|1834|5671|11749|12174|11279|10317|7951|5570|3479|2777|2439|2496|2645|2757|2991|3037|3118|3582;dp_hist_all_n_larger=29130;ab_hist_alt_bin_freq=0|0|0|0|0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=11408;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=2924;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3816;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=0;non_topmed_AN_amr=34310;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=4554;non_cancer_AF_asj_female=0.00000e+00;non_cancer_nhomalt_asj_female=0;AC_raw=1;AN_raw=251296;AF_raw=3.97937e-06;nhomalt_raw=0;AC_fin_female=0;AN_fin_female=10338;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=2654;non_cancer_AF_oth_female=0.00000e+00;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=2668;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=3062;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=23026;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=6162;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=6182;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=16240;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=12806;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=10042;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=20102;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=1;non_cancer_AN_female=106966;non_cancer_AF_female=9.34877e-06;non_cancer_nhomalt_female=0;non_cancer_AC_nfe_onf=1;non_cancer_AN_nfe_onf=24278;non_cancer_AF_nfe_onf=4.11896e-05;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=0;non_cancer_AN_male=128220;non_cancer_AF_male=0.00000e+00;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2850;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=9328;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=7488;non_cancer_AF_sas_female=0.00000e+00;non_cancer_nhomalt_sas_female=0;AC_afr_female=0;AN_afr_female=10058;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;AC_sas=0;AN_sas=30564;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=1;non_neuro_AN_female=95330;non_neuro_AF_female=1.04899e-05;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=7162;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=150;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=1;AN_nfe_onf=30608;AF_nfe_onf=3.26712e-05;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=14118;non_cancer_AF_amr_male=0.00000e+00;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=6902;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=35142;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=11242;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=1;AN_nfe_female=49624;AF_nfe_female=2.01515e-05;nhomalt_nfe_female=0;AC_amr=0;AN_amr=34444;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=62048;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=30556;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=11238;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=10516;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=18386;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=1;non_neuro_AN_nfe_female=39652;non_neuro_AF_nfe_female=2.52194e-05;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=16204;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=1;controls_AN_raw=10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|||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +X 200808 rs764715109 C T 3817.77 PASS AC=2;AN=249706;AF=8.00942e-06;rf_tp_probability=7.64473e-01;FS=5.64100e+00;InbreedingCoeff=6.30000e-03;MQ=5.99600e+01;MQRankSum=-5.13000e-01;QD=1.04000e+01;ReadPosRankSum=1.13000e+00;SOR=1.11400e+00;BaseQRankSum=1.03000e-01;ClippingRankSum=-1.54000e-01;DP=12097154;VQSLOD=-7.25700e-01;VQSR_culprit=MQ;segdup;variant_type=multi-snv;allele_type=snv;n_alt_alleles=3;pab_max=2.14977e-01;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|2;gq_hist_all_bin_freq=89|136|98|207|329|328|849|1505|1085|2810|3619|2325|6351|3431|4031|3672|5512|1514|4846|82911;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|0;dp_hist_alt_n_larger=1;dp_hist_all_bin_freq=323|429|1834|5671|11749|12174|11279|10317|7951|5570|3479|2777|2439|2496|2645|2757|2991|3037|3118|3582;dp_hist_all_n_larger=29130;ab_hist_alt_bin_freq=0|0|0|0|0|0|1|0|1|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=1;AN_nfe_seu=11408;AF_nfe_seu=8.76578e-05;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=2924;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=3816;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=1;non_topmed_AN_amr=34310;non_topmed_AF_amr=2.91460e-05;non_topmed_nhomalt_amr=0;non_cancer_AC_asj_female=0;non_cancer_AN_asj_female=4554;non_cancer_AF_asj_female=0.00000e+00;non_cancer_nhomalt_asj_female=0;AC_raw=2;AN_raw=251296;AF_raw=7.95874e-06;nhomalt_raw=0;AC_fin_female=0;AN_fin_female=10338;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_cancer_AC_oth_female=0;non_cancer_AN_oth_female=2654;non_cancer_AF_oth_female=0.00000e+00;non_cancer_nhomalt_oth_female=0;AC_nfe_bgr=0;AN_nfe_bgr=2668;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=3062;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;AC_sas_male=0;AN_sas_male=23026;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=6162;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=6182;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=16240;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=12806;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=10042;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=1;non_topmed_AN_amr_female=20102;non_topmed_AF_amr_female=4.97463e-05;non_topmed_nhomalt_amr_female=0;non_cancer_AC_female=1;non_cancer_AN_female=106966;non_cancer_AF_female=9.34877e-06;non_cancer_nhomalt_female=0;non_cancer_AC_nfe_onf=0;non_cancer_AN_nfe_onf=24278;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=1;non_cancer_AN_male=128220;non_cancer_AF_male=7.79910e-06;non_cancer_nhomalt_male=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=2850;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=9328;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;non_cancer_AC_sas_female=0;non_cancer_AN_sas_female=7488;non_cancer_AF_sas_female=0.00000e+00;non_cancer_nhomalt_sas_female=0;AC_afr_female=0;AN_afr_female=10058;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;AC_sas=0;AN_sas=30564;AF_sas=0.00000e+00;nhomalt_sas=0;non_neuro_AC_female=1;non_neuro_AN_female=95330;non_neuro_AF_female=1.04899e-05;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=7162;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=150;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=0;AN_nfe_onf=30608;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=14118;non_cancer_AF_amr_male=0.00000e+00;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=6902;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=35142;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=11242;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=49624;AF_nfe_female=0.00000e+00;nhomalt_nfe_female=0;AC_amr=1;AN_amr=34444;AF_amr=2.90326e-05;nhomalt_amr=0;non_topmed_AC_nfe_male=1;non_topmed_AN_nfe_male=62048;non_topmed_AF_nfe_male=1.61166e-05;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=30556;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=11238;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=1;non_cancer_AN_nfe_seu=10516;non_cancer_AF_nfe_seu=9.50932e-05;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=18386;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=39652;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=16204;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=0;controls_AN_raw=10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o_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;popmax=eas;AC_popmax=1;AN_popmax=4510;AF_popmax=2.21729e-04;nhomalt_popmax=0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|1|1|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;non_topmed_popmax=eas;non_topmed_AC_popmax=1;non_topmed_AN_popmax=4508;non_topmed_AF_popmax=2.21828e-04;non_topmed_nhomalt_popmax=0;non_neuro_popmax=eas;non_neuro_AC_popmax=1;non_neuro_AN_popmax=3282;non_neuro_AF_popmax=3.04692e-04;non_neuro_nhomalt_popmax=0;non_cancer_popmax=eas;non_cancer_AC_popmax=1;non_cancer_AN_popmax=4352;non_cancer_AF_popmax=2.29779e-04;non_cancer_nhomalt_popmax=0;controls_popmax=eas;controls_AC_popmax=1;controls_AN_popmax=2115;controls_AF_popmax=4.72813e-04;controls_nhomalt_popmax=0;vep=C|3_prime_UTR_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000383070|protein_coding|1/1||ENST00000383070.1:c.*51C>G||762|||||rs781744002|1||-1||SNV|1|HGNC|11311|YES|||CCDS14772.1|ENSP00000372547|Q05066|Q6J4J1&A7WPU8|UPI0000135F78|1||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|upstream_gene_variant|MODIFIER|RNASEH2CP1|ENSG00000237659|Transcript|ENST00000454281|processed_pseudogene||||||||||rs781744002|1|2889|1||SNV|1|HGNC|24117|YES||||||||||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|downstream_gene_variant|MODIFIER|RNU6-1334P|ENSG00000251841|Transcript|ENST00000516032|snRNA||||||||||rs781744002|1|2085|1||SNV|1|HGNC|48297|YES||||||||||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000525526|protein_coding||||||||||rs781744002|1|70|-1||SNV|1|HGNC|11311|||||ENSP00000437575||F5H6J8|UPI0002064E1A|1||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000534739|protein_coding||||||||||rs781744002|1|166|-1||SNV|1|HGNC|11311|||||ENSP00000438917||F5H3H1|UPI0002064E1B|1||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0|||||||||||| +Y 2655003 rs750874990 C G 729.42 PASS AC=1;AN=67694;AF=1.47724e-05;rf_tp_probability=5.81201e-01;FS=5.39900e+00;InbreedingCoeff=-9.00000e-04;MQ=5.73900e+01;MQRankSum=0.00000e+00;QD=3.31600e+01;ReadPosRankSum=8.50000e-02;SOR=2.61000e-01;VQSR_NEGATIVE_TRAIN_SITE;BaseQRankSum=-1.51900e+00;ClippingRankSum=3.51000e-01;DP=4567008;VQSLOD=6.70000e-01;VQSR_culprit=FS;nonpar;variant_type=snv;allele_type=snv;n_alt_alleles=1;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|0|0|0;gq_hist_all_bin_freq=2379|998|107|101|163|131|369|613|442|1014|1316|891|3485|484|2747|751|3346|298|3168|48644;dp_hist_alt_bin_freq=0|0|0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=57758|264|995|2427|5100|5454|7549|12920|9345|6932|5547|4241|3062|1777|1031|602|307|181|108|59;dp_hist_all_n_larger=89;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=4433;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=1458;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=931;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=0;non_topmed_AN_amr=7122;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;AC_raw=1;AN_raw=67961;AF_raw=1.47143e-05;nhomalt_raw=0;AC_nfe_bgr=0;AN_nfe_bgr=683;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;AC_sas_male=0;AN_sas_male=11488;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=3075;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=3086;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=3086;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=3289;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_cancer_AC_nfe_onf=0;non_cancer_AN_nfe_onf=6710;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=0;non_cancer_AN_male=64398;non_cancer_AF_male=0.00000e+00;non_cancer_nhomalt_male=0;AC_sas=0;AN_sas=11488;AF_sas=0.00000e+00;nhomalt_sas=0;controls_AC_afr=0;controls_AN_afr=1458;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=29;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=1;AN_nfe_onf=8237;AF_nfe_onf=1.21403e-04;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=7077;non_cancer_AF_amr_male=0.00000e+00;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=3457;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=9231;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=5600;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_amr=0;AN_amr=7151;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=1;non_topmed_AN_nfe_male=31283;non_topmed_AF_nfe_male=3.19662e-05;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=11485;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=5598;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=4215;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=4533;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_afr=0;non_neuro_AN_afr=3075;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=0;controls_AN_raw=29059;controls_AF_raw=0.00000e+00;controls_nhomalt_raw=0;non_cancer_AC_eas=0;non_cancer_AN_eas=4372;non_cancer_AF_eas=0.00000e+00;non_cancer_nhomalt_eas=0;non_neuro_AC_nfe_swe=0;non_neuro_AN_nfe_swe=3825;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_nhomalt_nfe_swe=0;controls_AC_male=0;controls_AN_male=28989;controls_AF_male=0.00000e+00;controls_nhomalt_male=0;non_topmed_AC_male=1;non_topmed_AN_male=66512;non_topmed_AF_male=1.50349e-05;non_topmed_nhomalt_male=0;controls_AC_eas_jpn=0;controls_AN_eas_jpn=23;controls_AF_eas_jpn=0.00000e+00;controls_nhomalt_eas_jpn=0;non_neuro_AC_amr=0;non_neuro_AN_amr=6121;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;AC_asj_male=0;AN_asj_male=2584;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=11778;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=4537;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;non_topmed_AC_sas=0;non_topmed_AN_sas=11488;non_topmed_AF_sas=0.00000e+00;non_topmed_nhomalt_sas=0;non_cancer_AC_asj=0;non_cancer_AN_asj=2483;non_cancer_AF_asj=0.00000e+00;non_cancer_nhomalt_asj=0;AC_nfe_swe=0;AN_nfe_swe=6947;AF_nfe_swe=0.00000e+00;nhomalt_nfe_swe=0;controls_AC_nfe=0;controls_AN_nfe=11778;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_asj=0;controls_AN_asj=553;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=6121;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=3902;controls_AF_nfe_nwe=0.00000e+00;controls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95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;popmax=nfe;AC_popmax=1;AN_popmax=31655;AF_popmax=3.15906e-05;nhomalt_popmax=0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;non_topmed_popmax=nfe;non_topmed_AC_popmax=1;non_topmed_AN_popmax=31283;non_topmed_AF_popmax=3.19662e-05;non_topmed_nhomalt_popmax=0;non_neuro_popmax=nfe;non_neuro_AC_popmax=1;non_neuro_AN_popmax=24794;non_neuro_AF_popmax=4.03323e-05;non_neuro_nhomalt_popmax=0;vep=G|3_prime_UTR_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000383070|protein_coding|1/1||ENST00000383070.1:c.*27G>C||738|||||rs750874990|1||-1||SNV|1|HGNC|11311|YES|||CCDS14772.1|ENSP00000372547|Q05066|Q6J4J1&A7WPU8|UPI0000135F78|1||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|upstream_gene_variant|MODIFIER|RNASEH2CP1|ENSG00000237659|Transcript|ENST00000454281|processed_pseudogene||||||||||rs750874990|1|2865|1||SNV|1|HGNC|24117|YES||||||||||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|downstream_gene_variant|MODIFIER|RNU6-1334P|ENSG00000251841|Transcript|ENST00000516032|snRNA||||||||||rs750874990|1|2109|1||SNV|1|HGNC|48297|YES||||||||||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000525526|protein_coding||||||||||rs750874990|1|46|-1||SNV|1|HGNC|11311|||||ENSP00000437575||F5H6J8|UPI0002064E1A|1||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000534739|protein_coding||||||||||rs750874990|1|142|-1||SNV|1|HGNC|11311|||||ENSP00000438917||F5H3H1|UPI0002064E1B|1||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0|||||||||||| +Y 2655009 rs1327055451 A G 2172.34 PASS AC=1;AN=67729;AF=1.47647e-05;rf_tp_probability=3.22983e-01;FS=0.00000e+00;InbreedingCoeff=-1.30000e-03;MQ=5.92400e+01;QD=3.29100e+01;SOR=4.34300e+00;DP=4609797;VQSLOD=-7.46500e+00;VQSR_culprit=SOR;nonpar;variant_type=snv;allele_type=snv;n_alt_alleles=1;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1;gq_hist_all_bin_freq=2392|1071|95|94|131|111|301|540|354|994|1230|718|3111|492|2473|841|3275|286|3097|49923;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=57746|249|794|2115|4505|5092|7652|14077|9561|6959|5544|4239|3060|1778|1031|602|307|181|108|59;dp_hist_all_n_larger=89;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=4431;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=1459;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_neuro_AC_eas_kor=0;non_neuro_AN_eas_kor=931;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_nhomalt_eas_kor=0;non_topmed_AC_amr=0;non_topmed_AN_amr=7124;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;AC_raw=1;AN_raw=67961;AF_raw=1.47143e-05;nhomalt_raw=0;AC_nfe_bgr=0;AN_nfe_bgr=683;AF_nfe_bgr=0.00000e+00;nhomalt_nfe_bgr=0;AC_sas_male=0;AN_sas_male=11489;AF_sas_male=0.00000e+00;nhomalt_sas_male=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=3076;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=3087;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=3087;AF_afr=0.00000e+00;nhomalt_afr=0;controls_AC_nfe_swe=0;controls_AN_nfe_swe=3293;controls_AF_nfe_swe=0.00000e+00;controls_nhomalt_nfe_swe=0;non_cancer_AC_nfe_onf=1;non_cancer_AN_nfe_onf=6709;non_cancer_AF_nfe_onf=1.49054e-04;non_cancer_nhomalt_nfe_onf=0;non_cancer_AC_male=1;non_cancer_AN_male=64427;non_cancer_AF_male=1.55214e-05;non_cancer_nhomalt_male=0;AC_sas=0;AN_sas=11489;AF_sas=0.00000e+00;nhomalt_sas=0;controls_AC_afr=0;controls_AN_afr=1459;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;non_neuro_AC_eas_jpn=0;non_neuro_AN_eas_jpn=29;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_nhomalt_eas_jpn=0;AC_nfe_onf=1;AN_nfe_onf=8240;AF_nfe_onf=1.21359e-04;nhomalt_nfe_onf=0;non_cancer_AC_amr_male=0;non_cancer_AN_amr_male=7079;non_cancer_AF_amr_male=0.00000e+00;non_cancer_nhomalt_amr_male=0;controls_AC_fin_male=0;controls_AN_fin_male=3457;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=9233;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=5611;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_amr=0;AN_amr=7153;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=1;non_topmed_AN_nfe_male=31301;non_topmed_AF_nfe_male=3.19479e-05;non_topmed_nhomalt_nfe_male=0;non_neuro_AC_sas=0;non_neuro_AN_sas=11486;non_neuro_AF_sas=0.00000e+00;non_neuro_nhomalt_sas=0;non_cancer_AC_fin_male=0;non_cancer_AN_fin_male=5609;non_cancer_AF_fin_male=0.00000e+00;non_cancer_nhomalt_fin_male=0;non_cancer_AC_nfe_seu=0;non_cancer_AN_nfe_seu=4212;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_nhomalt_nfe_seu=0;AC_eas=0;AN_eas=4533;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_afr=0;non_neuro_AN_afr=3076;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=0;controls_AN_raw=29059;controls_AF_raw=0.00000e+00;controls_nhomalt_raw=0;non_cancer_AC_eas=0;non_cancer_AN_eas=4372;non_cancer_AF_eas=0.00000e+00;non_cancer_nhomalt_eas=0;non_neuro_AC_nfe_swe=0;non_neuro_AN_nfe_swe=3831;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_nhomalt_nfe_swe=0;controls_AC_male=0;controls_AN_male=29000;controls_AF_male=0.00000e+00;controls_nhomalt_male=0;non_topmed_AC_male=1;non_topmed_AN_male=66547;non_topmed_AF_male=1.50270e-05;non_topmed_nhomalt_male=0;controls_AC_eas_jpn=0;controls_AN_eas_jpn=23;controls_AF_eas_jpn=0.00000e+00;controls_nhomalt_eas_jpn=0;non_neuro_AC_amr=0;non_neuro_AN_amr=6122;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;AC_asj_male=0;AN_asj_male=2585;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=11784;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=4537;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;non_topmed_AC_sas=0;non_topmed_AN_sas=11489;non_topmed_AF_sas=0.00000e+00;non_topmed_nhomalt_sas=0;non_cancer_AC_asj=0;non_cancer_AN_asj=2484;non_cancer_AF_asj=0.00000e+00;non_cancer_nhomalt_asj=0;AC_nfe_swe=0;AN_nfe_swe=6956;AF_nfe_swe=0.00000e+00;nhomalt_nfe_swe=0;controls_AC_nfe=0;controls_AN_nfe=11784;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_asj=0;controls_AN_asj=553;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=6122;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=3904;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=0;AN_nfe_nwe=11318;AF_nfe_nwe=0.00000e+00;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_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alt_oth=0;non_topmed_AC_fin_female=2;non_topmed_AN_fin_female=204;non_topmed_AF_fin_female=9.80392e-03;non_topmed_nhomalt_fin_female=0;AC_oth=3;AN_oth=110;AF_oth=2.72727e-02;nhomalt_oth=0;non_neuro_AC_nfe_male=7;non_neuro_AN_nfe_male=718;non_neuro_AF_nfe_male=9.74930e-03;non_neuro_nhomalt_nfe_male=0;controls_AC_female=5;controls_AN_female=336;controls_AF_female=1.48810e-02;controls_nhomalt_female=0;non_topmed_AC_fin=4;non_topmed_AN_fin=436;non_topmed_AF_fin=9.17431e-03;non_topmed_nhomalt_fin=0;non_topmed_AC_nfe_female=3;non_topmed_AN_nfe_female=400;non_topmed_AF_nfe_female=7.50000e-03;non_topmed_nhomalt_nfe_female=0;controls_AC_asj_male=0;controls_AN_asj_male=2;controls_AF_asj_male=0.00000e+00;controls_nhomalt_asj_male=0;non_topmed_AC_asj_male=0;non_topmed_AN_asj_male=4;non_topmed_AF_asj_male=0.00000e+00;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=1;non_neuro_AN_oth=66;non_neuro_AF_oth=1.51515e-02;non_neuro_nhomalt_oth=0;AC_male=11;AN_male=1464;AF_male=7.51366e-03;nhomalt_male=0;controls_AC_fin_female=1;controls_AN_fin_female=62;controls_AF_fin_female=1.61290e-02;controls_nhomalt_fin_female=0;controls_AC_asj_female=0;controls_AN_asj_female=2;controls_AF_asj_female=0.00000e+00;controls_nhomalt_asj_female=0;AC_amr_male=0;AN_amr_male=110;AF_amr_male=0.00000e+00;nhomalt_amr_male=0;AC_amr_female=0;AN_amr_female=82;AF_amr_female=0.00000e+00;nhomalt_amr_female=0;AC_oth_male=0;AN_oth_male=52;AF_oth_male=0.00000e+00;nhomalt_oth_male=0;non_neuro_AC_nfe_seu=0;non_neuro_AN_nfe_seu=4;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_nhomalt_nfe_seu=0;non_topmed_AC_afr_female=0;non_topmed_AN_afr_female=74;non_topmed_AF_afr_female=0.00000e+00;non_topmed_nhomalt_afr_female=0;non_topmed_AC_afr=2;non_topmed_AN_afr=188;non_topmed_AF_afr=1.06383e-02;non_topmed_nhomalt_afr=0;controls_AC=11;controls_AN=804;controls_AF=1.36816e-02;controls_nhomalt=0;non_neuro_AC_oth_female=1;non_neuro_AN_oth_female=32;non_neuro_AF_oth_female=3.12500e-02;non_neuro_nhomalt_oth_female=0;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;faf95_afr=1.79400e-03;faf99_afr=1.79433e-03;controls_faf95_afr=0.00000e+00;controls_faf99_afr=0.00000e+00;faf95_amr=0.00000e+00;faf99_amr=0.00000e+00;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=5.65559e-03;faf99=5.65562e-03;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;controls_faf95_nfe=8.42338e-03;controls_faf99_nfe=8.42339e-03;non_topmed_faf95=5.85761e-03;non_topmed_faf99=5.85769e-03;non_neuro_faf95_nfe=5.20969e-03;non_neuro_faf99_nfe=5.21001e-03;non_neuro_faf95=5.51994e-03;non_neuro_faf99=5.51936e-03;non_topmed_faf95_nfe=4.60646e-03;non_topmed_faf99_nfe=4.60678e-03;controls_faf95_eas=4.49000e-04;controls_faf99_eas=4.49000e-04;faf95_nfe=4.65925e-03;faf99_nfe=4.65853e-03;non_topmed_faf95_eas=2.46000e-04;non_topmed_faf99_eas=2.46000e-04;controls_faf95_amr=0.00000e+00;controls_faf99_amr=0.00000e+00;non_neuro_faf95_eas=2.37000e-04;non_neuro_faf99_eas=2.37000e-04;non_topmed_faf95_afr=1.88999e-03;non_topmed_faf99_afr=1.88942e-03;controls_faf95=7.67285e-03;controls_faf99=7.67242e-03;controls_popmax=nfe;controls_AC_popmax=7;controls_AN_popmax=390;controls_AF_popmax=1.79487e-02;controls_nhomalt_popmax=0;popmax=afr;AC_popmax=2;AN_popmax=198;AF_popmax=1.01010e-02;nhomalt_popmax=0;age_hist_het_bin_freq=2|1|2|2|3|1|0|1|1|0;age_hist_het_n_smaller=5;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;non_neuro_popmax=nfe;non_neuro_AC_popmax=11;non_neuro_AN_popmax=1184;non_neuro_AF_popmax=9.29054e-03;non_neuro_nhomalt_popmax=0;non_topmed_popmax=afr;non_topmed_AC_popmax=2;non_topmed_AN_popmax=188;non_topmed_AF_popmax=1.06383e-02;non_topmed_nhomalt_popmax=0;vep=G|intergenic_variant|MODIFIER||||||||||||||||1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +X 60008 rs1179917603 T G 556.91 RF AC=1;AN=8576;AF=1.16604e-04;rf_tp_probability=7.81923e-02;FS=3.22570e+01;InbreedingCoeff=-2.20000e-02;MQ=5.77600e+01;MQRankSum=3.58000e-01;QD=8.31000e+00;ReadPosRankSum=3.22000e-01;SOR=3.94700e+00;BaseQRankSum=3.22000e-01;ClippingRankSum=3.22000e-01;DP=178945;VQSLOD=-6.38900e+01;VQSR_culprit=DP;segdup;variant_type=snv;allele_type=snv;n_alt_alleles=1;pab_max=1.00000e+00;gq_hist_alt_bin_freq=0|0|0|1|0|0|0|0|0|1|0|1|0|0|0|0|0|0|0|1;gq_hist_all_bin_freq=1259|2119|1412|2707|2360|937|1418|916|290|439|231|80|131|15|31|8|9|0|3|5;dp_hist_alt_bin_freq=0|3|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=3485|6976|3652|1207|319|52|10|6|1|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_larger=0;ab_hist_alt_bin_freq=0|0|0|0|1|0|0|0|0|0|1|1|1|0|0|0|0|0|0|0;AC_nfe_seu=0;AN_nfe_seu=48;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=186;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_topmed_AC_amr=0;non_topmed_AN_amr=398;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;AC_raw=4;AN_raw=28740;AF_raw=1.39179e-04;nhomalt_raw=0;AC_fin_female=0;AN_fin_female=740;AF_fin_female=0.00000e+00;nhomalt_fin_female=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=28;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=224;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=662;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=0;AN_afr=1140;AF_afr=0.00000e+00;nhomalt_afr=0;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=262;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=184;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=170;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=170;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;AC_afr_female=0;AN_afr_female=478;AF_afr_female=0.00000e+00;nhomalt_afr_female=0;non_neuro_AC_female=0;non_neuro_AN_female=2584;non_neuro_AF_female=0.00000e+00;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=350;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;AC_nfe_onf=0;AN_nfe_onf=810;AF_nfe_onf=0.00000e+00;nhomalt_nfe_onf=0;controls_AC_fin_male=0;controls_AN_fin_male=274;controls_AF_fin_male=0.00000e+00;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=2530;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=0;AN_fin_male=696;AF_fin_male=0.00000e+00;nhomalt_fin_male=0;AC_nfe_female=0;AN_nfe_female=1900;AF_nfe_female=0.00000e+00;nhomalt_nfe_female=0;AC_amr=0;AN_amr=414;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=1632;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;AC_eas=0;AN_eas=440;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=0;non_neuro_AC_nfe_female=0;non_neuro_AN_nfe_female=1648;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=486;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=1;controls_AN_raw=10056;controls_AF_raw=9.94431e-05;controls_nhomalt_raw=0;controls_AC_male=0;controls_AN_male=1520;controls_AF_male=0.00000e+00;controls_nhomalt_male=0;non_topmed_AC_male=1;non_topmed_AN_male=3620;non_topmed_AF_male=2.76243e-04;non_topmed_nhomalt_male=0;controls_AC_nfe_female=0;controls_AN_nfe_female=642;controls_AF_nfe_female=0.00000e+00;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=0;non_neuro_AN_amr=244;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=170;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=58;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=782;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=0;non_neuro_AN_fin=520;non_neuro_AF_fin=0.00000e+00;non_neuro_nhomalt_fin=0;AC_oth_female=0;AN_oth_female=180;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;controls_AC_nfe=0;controls_AN_nfe=1424;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=50;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=24;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=116;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=384;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=0;AN_nfe_nwe=2892;AF_nfe_nwe=0.00000e+00;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=26;controls_AF_nfe_seu=0.00000e+00;controls_nhomalt_nfe_seu=0;non_neuro_AC_amr_female=0;non_neuro_AN_amr_female=128;non_neuro_AF_amr_female=0.00000e+00;non_neuro_nhomalt_amr_female=0;non_neuro_AC_nfe_onf=0;non_neuro_AN_nfe_onf=632;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=262;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;controls_AC_amr_female=0;controls_AN_amr_female=64;controls_AF_amr_female=0.00000e+00;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=0;non_neuro_AN_fin_male=274;non_neuro_AF_fin_male=0.00000e+00;non_neuro_nhomalt_fin_male=0;AC_female=0;AN_female=3696;AF_female=0.00000e+00;nhomalt_female=0;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=110;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=940;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=0;non_topmed_AN_nfe_nwe=1574;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=0;non_topmed_AN_amr_male=214;non_topmed_AF_amr_male=0.00000e+00;non_topmed_nhomalt_amr_male=0;non_topmed_AC_nfe_onf=0;non_topmed_AN_nfe_onf=558;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_male=0;controls_AN_eas_male=146;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=54;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=1;non_topmed_AN=6868;non_topmed_AF=1.45603e-04;non_topmed_nhomalt=0;controls_AC_fin=0;controls_AN_fin=518;controls_AF_fin=0.00000e+00;controls_nhomalt_fin=0;non_neuro_AC_nfe=0;non_neuro_AN_nfe=4034;non_neuro_AF_nfe=0.00000e+00;non_neuro_nhomalt_nfe=0;non_neuro_AC_fin_female=0;non_neuro_AN_fin_female=246;non_neuro_AF_fin_female=0.00000e+00;non_neuro_nhomalt_fin_female=0;non_topmed_AC_nfe_seu=0;non_topmed_AN_nfe_seu=48;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=104;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=0;non_topmed_AN_asj=56;non_topmed_AF_asj=0.00000e+00;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=0;controls_AN_nfe_onf=174;controls_AF_nfe_onf=0.00000e+00;controls_nhomalt_nfe_onf=0;non_neuro_AC=0;non_neuro_AN=6012;non_neuro_AF=0.00000e+00;non_neuro_nhomalt=0;non_topmed_AC_nfe=0;non_topmed_AN_nfe=3120;non_topmed_AF_nfe=0.00000e+00;non_topmed_nhomalt_nfe=0;non_topmed_AC_raw=2;non_topmed_AN_raw=24098;non_topmed_AF_raw=8.29944e-05;non_topmed_nhomalt_raw=0;non_neuro_AC_nfe_est=0;non_neuro_AN_nfe_est=846;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=1;non_topmed_AN_oth_male=156;non_topmed_AF_oth_male=6.41026e-03;non_topmed_nhomalt_oth_male=0;AC_nfe_est=0;AN_nfe_est=944;AF_nfe_est=0.00000e+00;nhomalt_nfe_est=0;non_topmed_AC_afr_male=0;non_topmed_AN_afr_male=638;non_topmed_AF_afr_male=0.00000e+00;non_topmed_nhomalt_afr_male=0;AC_eas_male=0;AN_eas_male=270;AF_eas_male=0.00000e+00;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=250;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=270;non_neuro_AF_eas_male=0.00000e+00;non_neuro_nhomalt_eas_male=0;non_neuro_AC_asj_male=0;non_neuro_AN_asj_male=48;non_neuro_AF_asj_male=0.00000e+00;non_neuro_nhomalt_asj_male=0;controls_AC_oth=0;controls_AN_oth=104;controls_AF_oth=0.00000e+00;controls_nhomalt_oth=0;AC_nfe=0;AN_nfe=4694;AF_nfe=0.00000e+00;nhomalt_nfe=0;non_topmed_AC_female=0;non_topmed_AN_female=3248;non_topmed_AF_female=0.00000e+00;non_topmed_nhomalt_female=0;non_neuro_AC_asj=0;non_neuro_AN_asj=76;non_neuro_AF_asj=0.00000e+00;non_neuro_nhomalt_asj=0;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=162;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=3;non_neuro_AN_raw=19964;non_neuro_AF_raw=1.50270e-04;non_neuro_nhomalt_raw=0;non_topmed_AC_eas=0;non_topmed_AN_eas=424;non_topmed_AF_eas=0.00000e+00;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=0;non_topmed_AN_fin_male=696;non_topmed_AF_fin_male=0.00000e+00;non_topmed_nhomalt_fin_male=0;AC_fin=0;AN_fin=1436;AF_fin=0.00000e+00;nhomalt_fin=0;AC_nfe_male=0;AN_nfe_male=2794;AF_nfe_male=0.00000e+00;nhomalt_nfe_male=0;controls_AC_amr_male=0;controls_AN_amr_male=70;controls_AF_amr_male=0.00000e+00;controls_nhomalt_amr_male=0;controls_AC_afr_female=0;controls_AN_afr_female=164;controls_AF_afr_female=0.00000e+00;controls_nhomalt_afr_female=0;controls_AC_amr=0;controls_AN_amr=134;controls_AF_amr=0.00000e+00;controls_nhomalt_amr=0;AC_asj_female=0;AN_asj_female=38;AF_asj_female=0.00000e+00;nhomalt_asj_female=0;non_neuro_AC_eas=0;non_neuro_AN_eas=440;non_neuro_AF_eas=0.00000e+00;non_neuro_nhomalt_eas=0;non_neuro_AC_male=0;non_neuro_AN_male=3428;non_neuro_AF_male=0.00000e+00;non_neuro_nhomalt_male=0;AC_asj=0;AN_asj=96;AF_asj=0.00000e+00;nhomalt_asj=0;controls_AC_nfe_est=0;controls_AN_nfe_est=840;controls_AF_nfe_est=0.00000e+00;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=0;non_topmed_AN_asj_female=34;non_topmed_AF_asj_female=0.00000e+00;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=1;non_topmed_AN_oth=326;non_topmed_AF_oth=3.06748e-03;non_topmed_nhomalt_oth=0;non_topmed_AC_fin_female=0;non_topmed_AN_fin_female=740;non_topmed_AF_fin_female=0.00000e+00;non_topmed_nhomalt_fin_female=0;AC_oth=1;AN_oth=356;AF_oth=2.80899e-03;nhomalt_oth=0;non_neuro_AC_nfe_male=0;non_neuro_AN_nfe_male=2386;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_nhomalt_nfe_male=0;controls_AC_female=0;controls_AN_female=1284;controls_AF_female=0.00000e+00;controls_nhomalt_female=0;non_topmed_AC_fin=0;non_topmed_AN_fin=1436;non_topmed_AF_fin=0.00000e+00;non_topmed_nhomalt_fin=0;non_topmed_AC_nfe_female=0;non_topmed_AN_nfe_female=1488;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_nhomalt_nfe_female=0;controls_AC_asj_male=0;controls_AN_asj_male=8;controls_AF_asj_male=0.00000e+00;controls_nhomalt_asj_male=0;non_topmed_AC_asj_male=0;non_topmed_AN_asj_male=22;non_topmed_AF_asj_male=0.00000e+00;non_topmed_nhomalt_asj_male=0;non_neuro_AC_oth=0;non_neuro_AN_oth=212;non_neuro_AF_oth=0.00000e+00;non_neuro_nhomalt_oth=0;AC_male=1;AN_male=4880;AF_male=2.04918e-04;nhomalt_male=0;controls_AC_fin_female=0;controls_AN_fin_female=244;controls_AF_fin_female=0.00000e+00;controls_nhomalt_fin_female=0;controls_AC_asj_female=0;controls_AN_asj_female=16;controls_AF_asj_female=0.00000e+00;controls_nhomalt_asj_female=0;AC_amr_male=0;AN_amr_male=224;AF_amr_male=0.00000e+00;nhomalt_amr_male=0;AC_amr_female=0;AN_amr_female=190;AF_amr_female=0.00000e+00;nhomalt_amr_female=0;AC_oth_male=1;AN_oth_male=176;AF_oth_male=5.68182e-03;nhomalt_oth_male=0;non_neuro_AC_nfe_seu=0;non_neuro_AN_nfe_seu=26;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_nhomalt_nfe_seu=0;non_topmed_AC_afr_female=0;non_topmed_AN_afr_female=470;non_topmed_AF_afr_female=0.00000e+00;non_topmed_nhomalt_afr_female=0;non_topmed_AC_afr=0;non_topmed_AN_afr=1108;non_topmed_AF_afr=0.00000e+00;non_topmed_nhomalt_afr=0;controls_AC=0;controls_AN=2804;controls_AF=0.00000e+00;controls_nhomalt=0;non_neuro_AC_oth_female=0;non_neuro_AN_oth_female=102;non_neuro_AF_oth_female=0.00000e+00;non_neuro_nhomalt_oth_female=0;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;faf95_afr=0.00000e+00;faf99_afr=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf99_afr=0.00000e+00;faf95_amr=0.00000e+00;faf99_amr=0.00000e+00;faf95_eas=0.00000e+00;faf99_eas=0.00000e+00;faf95=0.00000e+00;faf99=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf99_nfe=0.00000e+00;non_topmed_faf95=7.00000e-06;non_topmed_faf99=7.00000e-06;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf95=0.00000e+00;non_neuro_faf99=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf99_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf99_nfe=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf99_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;controls_faf95=0.00000e+00;controls_faf99=0.00000e+00;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;vep=G|intergenic_variant|MODIFIER||||||||||||||||1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +X 60009 rs565284081 A G 18093.80 PASS AC=8;AN=3214;AF=2.48911e-03;rf_tp_probability=2.90907e-01;FS=7.28800e+00;InbreedingCoeff=-1.36300e-01;MQ=5.87000e+01;MQRankSum=4.37000e-01;QD=3.42400e+01;ReadPosRankSum=7.36000e-01;SOR=1.16200e+00;VQSR_NEGATIVE_TRAIN_SITE;BaseQRankSum=5.46000e-01;ClippingRankSum=7.36000e-01;DP=182720;VQSLOD=-7.74400e+00;VQSR_culprit=MQ;segdup;variant_type=snv;allele_type=snv;n_alt_alleles=1;pab_max=1.00000e+00;gq_hist_alt_bin_freq=6|7|9|8|3|3|1|0|0|0|0|0|1|1|0|0|0|0|0|5;gq_hist_all_bin_freq=5521|570|336|607|573|246|432|345|111|195|113|31|79|12|21|5|12|0|1|11;dp_hist_alt_bin_freq=19|17|4|3|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=3382|6920|3732|1274|320|60|11|8|1|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_larger=0;ab_hist_alt_bin_freq=0|0|0|1|0|0|3|0|1|2|4|2|3|4|1|2|1|1|0|1;AC_nfe_seu=0;AN_nfe_seu=12;AF_nfe_seu=0.00000e+00;nhomalt_nfe_seu=0;controls_AC_afr_male=0;controls_AN_afr_male=48;controls_AF_afr_male=0.00000e+00;controls_nhomalt_afr_male=0;non_topmed_AC_amr=0;non_topmed_AN_amr=198;non_topmed_AF_amr=0.00000e+00;non_topmed_nhomalt_amr=0;AC_raw=61;AN_raw=18442;AF_raw=3.30767e-03;nhomalt_raw=17;AC_fin_female=2;AN_fin_female=210;AF_fin_female=9.52381e-03;nhomalt_fin_female=0;non_neuro_AC_asj_female=0;non_neuro_AN_asj_female=4;non_neuro_AF_asj_female=0.00000e+00;non_neuro_nhomalt_asj_female=0;non_neuro_AC_afr_male=0;non_neuro_AN_afr_male=62;non_neuro_AF_afr_male=0.00000e+00;non_neuro_nhomalt_afr_male=0;AC_afr_male=0;AN_afr_male=168;AF_afr_male=0.00000e+00;nhomalt_afr_male=0;AC_afr=2;AN_afr=300;AF_afr=6.66667e-03;nhomalt_afr=1;non_neuro_AC_afr_female=0;non_neuro_AN_afr_female=60;non_neuro_AF_afr_female=0.00000e+00;non_neuro_nhomalt_afr_female=0;non_topmed_AC_amr_female=0;non_topmed_AN_amr_female=84;non_topmed_AF_amr_female=0.00000e+00;non_topmed_nhomalt_amr_female=0;non_topmed_AC_oth_female=0;non_topmed_AN_oth_female=58;non_topmed_AF_oth_female=0.00000e+00;non_topmed_nhomalt_oth_female=0;AC_eas_female=0;AN_eas_female=122;AF_eas_female=0.00000e+00;nhomalt_eas_female=0;AC_afr_female=2;AN_afr_female=132;AF_afr_female=1.51515e-02;nhomalt_afr_female=1;non_neuro_AC_female=1;non_neuro_AN_female=1040;non_neuro_AF_female=9.61538e-04;non_neuro_nhomalt_female=0;controls_AC_afr=0;controls_AN_afr=90;controls_AF_afr=0.00000e+00;controls_nhomalt_afr=0;AC_nfe_onf=1;AN_nfe_onf=272;AF_nfe_onf=3.67647e-03;nhomalt_nfe_onf=0;controls_AC_fin_male=1;controls_AN_fin_male=96;controls_AF_fin_male=1.04167e-02;controls_nhomalt_fin_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AN_nfe_nwe=1030;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_nhomalt_nfe_nwe=0;AC_fin_male=3;AN_fin_male=240;AF_fin_male=1.25000e-02;nhomalt_fin_male=0;AC_nfe_female=1;AN_nfe_female=770;AF_nfe_female=1.29870e-03;nhomalt_nfe_female=0;AC_amr=0;AN_amr=210;AF_amr=0.00000e+00;nhomalt_amr=0;non_topmed_AC_nfe_male=0;non_topmed_AN_nfe_male=624;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_nhomalt_nfe_male=0;AC_eas=0;AN_eas=308;AF_eas=0.00000e+00;nhomalt_eas=0;nhomalt=1;non_neuro_AC_nfe_female=1;non_neuro_AN_nfe_female=688;non_neuro_AF_nfe_female=1.45349e-03;non_neuro_nhomalt_nfe_female=0;non_neuro_AC_afr=0;non_neuro_AN_afr=122;non_neuro_AF_afr=0.00000e+00;non_neuro_nhomalt_afr=0;controls_AC_raw=17;controls_AN_raw=6604;controls_AF_raw=2.57420e-03;controls_nhomalt_raw=5;controls_AC_male=1;controls_AN_male=582;controls_AF_male=1.71821e-03;controls_nhomalt_male=0;non_topmed_AC_male=3;non_topmed_AN_male=1374;non_topmed_AF_male=2.18341e-03;non_topmed_nhomalt_male=0;controls_AC_nfe_female=0;controls_AN_nfe_female=242;controls_AF_nfe_female=0.00000e+00;controls_nhomalt_nfe_female=0;non_neuro_AC_amr=0;non_neuro_AN_amr=104;non_neuro_AF_amr=0.00000e+00;non_neuro_nhomalt_amr=0;non_neuro_AC_eas_female=0;non_neuro_AN_eas_female=122;non_neuro_AF_eas_female=0.00000e+00;non_neuro_nhomalt_eas_female=0;AC_asj_male=0;AN_asj_male=6;AF_asj_male=0.00000e+00;nhomalt_asj_male=0;controls_AC_nfe_male=0;controls_AN_nfe_male=300;controls_AF_nfe_male=0.00000e+00;controls_nhomalt_nfe_male=0;non_neuro_AC_fin=1;non_neuro_AN_fin=164;non_neuro_AF_fin=6.09756e-03;non_neuro_nhomalt_fin=0;AC_oth_female=0;AN_oth_female=60;AF_oth_female=0.00000e+00;nhomalt_oth_female=0;controls_AC_nfe=0;controls_AN_nfe=542;controls_AF_nfe=0.00000e+00;controls_nhomalt_nfe=0;controls_AC_oth_female=0;controls_AN_oth_female=18;controls_AF_oth_female=0.00000e+00;controls_nhomalt_oth_female=0;controls_AC_asj=0;controls_AN_asj=4;controls_AF_asj=0.00000e+00;controls_nhomalt_asj=0;non_neuro_AC_amr_male=0;non_neuro_AN_amr_male=46;non_neuro_AF_amr_male=0.00000e+00;non_neuro_nhomalt_amr_male=0;controls_AC_nfe_nwe=0;controls_AN_nfe_nwe=148;controls_AF_nfe_nwe=0.00000e+00;controls_nhomalt_nfe_nwe=0;AC_nfe_nwe=0;AN_nfe_nwe=1130;AF_nfe_nwe=0.00000e+00;nhomalt_nfe_nwe=0;controls_AC_nfe_seu=0;controls_AN_nfe_seu=4;controls_AF_nfe_seu=0.00000e+00;controls_nhomalt_nfe_seu=0;non_neuro_AC_amr_female=0;non_neuro_AN_amr_female=58;non_neuro_AF_amr_female=0.00000e+00;non_neuro_nhomalt_amr_female=0;non_neuro_AC_nfe_onf=1;non_neuro_AN_nfe_onf=238;non_neuro_AF_nfe_onf=4.20168e-03;non_neuro_nhomalt_nfe_onf=0;non_topmed_AC_eas_male=0;non_topmed_AN_eas_male=180;non_topmed_AF_eas_male=0.00000e+00;non_topmed_nhomalt_eas_male=0;controls_AC_amr_female=0;controls_AN_amr_female=26;controls_AF_amr_female=0.00000e+00;controls_nhomalt_amr_female=0;non_neuro_AC_fin_male=1;non_neuro_AN_fin_male=96;non_neuro_AF_fin_male=1.04167e-02;non_neuro_nhomalt_fin_male=0;AC_female=5;AN_female=1390;AF_female=3.59712e-03;nhomalt_female=1;non_neuro_AC_oth_male=0;non_neuro_AN_oth_male=46;non_neuro_AF_oth_male=0.00000e+00;non_neuro_nhomalt_oth_male=0;non_topmed_AC_nfe_est=0;non_topmed_AN_nfe_est=392;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_nhomalt_nfe_est=0;non_topmed_AC_nfe_nwe=0;non_topmed_AN_nfe_nwe=630;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_nhomalt_nfe_nwe=0;non_topmed_AC_amr_male=0;non_topmed_AN_amr_male=114;non_topmed_AF_amr_male=0.00000e+00;non_topmed_nhomalt_amr_male=0;non_topmed_AC_nfe_onf=0;non_topmed_AN_nfe_onf=178;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_nhomalt_nfe_onf=0;controls_AC_eas_male=0;controls_AN_eas_male=92;controls_AF_eas_male=0.00000e+00;controls_nhomalt_eas_male=0;controls_AC_oth_male=0;controls_AN_oth_male=22;controls_AF_oth_male=0.00000e+00;controls_nhomalt_oth_male=0;non_topmed_AC=7;non_topmed_AN=2566;non_topmed_AF=2.72798e-03;non_topmed_nhomalt=1;controls_AC_fin=1;controls_AN_fin=162;controls_AF_fin=6.17284e-03;controls_nhomalt_fin=0;non_neuro_AC_nfe=1;non_neuro_AN_nfe=1632;non_neuro_AF_nfe=6.12745e-04;non_neuro_nhomalt_nfe=0;non_neuro_AC_fin_female=0;non_neuro_AN_fin_female=68;non_neuro_AF_fin_female=0.00000e+00;non_neuro_nhomalt_fin_female=0;non_topmed_AC_nfe_seu=0;non_topmed_AN_nfe_seu=12;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_nhomalt_nfe_seu=0;controls_AC_eas_female=0;controls_AN_eas_female=78;controls_AF_eas_female=0.00000e+00;controls_nhomalt_eas_female=0;non_topmed_AC_asj=0;non_topmed_AN_asj=8;non_topmed_AF_asj=0.00000e+00;non_topmed_nhomalt_asj=0;controls_AC_nfe_onf=0;controls_AN_nfe_onf=34;controls_AF_nfe_onf=0.00000e+00;controls_nhomalt_nfe_onf=0;non_neuro_AC=2;non_neuro_AN=2426;non_neuro_AF=8.24402e-04;non_neuro_nhomalt=0;non_topmed_AC_nfe=0;non_topmed_AN_nfe=1212;non_topmed_AF_nfe=0.00000e+00;non_topmed_nhomalt_nfe=0;non_topmed_AC_raw=52;non_topmed_AN_raw=15420;non_topmed_AF_raw=3.37224e-03;non_topmed_nhomalt_raw=15;non_neuro_AC_nfe_est=0;non_neuro_AN_nfe_est=360;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_nhomalt_nfe_est=0;non_topmed_AC_oth_male=0;non_topmed_AN_oth_male=58;non_topmed_AF_oth_male=0.00000e+00;non_topmed_nhomalt_oth_male=0;AC_nfe_est=0;AN_nfe_est=396;AF_nfe_est=0.00000e+00;nhomalt_nfe_est=0;non_topmed_AC_afr_male=0;non_topmed_AN_afr_male=156;non_topmed_AF_afr_male=0.00000e+00;non_topmed_nhomalt_afr_male=0;AC_eas_male=0;AN_eas_male=186;AF_eas_male=0.00000e+00;nhomalt_eas_male=0;controls_AC_eas=0;controls_AN_eas=170;controls_AF_eas=0.00000e+00;controls_nhomalt_eas=0;non_neuro_AC_eas_male=0;non_neuro_AN_eas_male=186;non_neuro_AF_eas_male=0.00000e+00;non_neuro_nhomalt_eas_male=0;non_neuro_AC_asj_male=0;non_neuro_AN_asj_male=6;non_neuro_AF_asj_male=0.00000e+00;non_neuro_nhomalt_asj_male=0;controls_AC_oth=0;controls_AN_oth=40;controls_AF_oth=0.00000e+00;controls_nhomalt_oth=0;AC_nfe=1;AN_nfe=1810;AF_nfe=5.52486e-04;nhomalt_nfe=0;non_topmed_AC_female=4;non_topmed_AN_female=1192;non_topmed_AF_female=3.35570e-03;non_topmed_nhomalt_female=1;non_neuro_AC_asj=0;non_neuro_AN_asj=10;non_neuro_AF_asj=0.00000e+00;non_neuro_nhomalt_asj=0;non_topmed_AC_eas_female=0;non_topmed_AN_eas_female=114;non_topmed_AF_eas_female=0.00000e+00;non_topmed_nhomalt_eas_female=0;non_neuro_AC_raw=36;non_neuro_AN_raw=13096;non_neuro_AF_raw=2.74893e-03;non_neuro_nhomalt_raw=10;non_topmed_AC_eas=0;non_topmed_AN_eas=294;non_topmed_AF_eas=0.00000e+00;non_topmed_nhomalt_eas=0;non_topmed_AC_fin_male=3;non_topmed_AN_fin_male=240;non_topmed_AF_fin_male=1.25000e-02;non_topmed_nhomalt_fin_male=0;AC_fin=5;AN_fin=450;AF_fin=1.11111e-02;nhomalt_fin=0;AC_nfe_male=0;AN_nfe_male=1040;AF_nfe_male=0.00000e+00;nhomalt_nfe_male=0;controls_AC_amr_male=0;controls_AN_amr_male=22;controls_AF_amr_male=0.00000e+00;controls_nhomalt_amr_male=0;controls_AC_afr_female=0;controls_AN_afr_female=42;controls_AF_afr_female=0.00000e+00;controls_nhomalt_afr_female=0;controls_AC_amr=0;controls_AN_amr=48;controls_AF_amr=0.00000e+00;controls_nhomalt_amr=0;AC_asj_female=0;AN_asj_female=6;AF_asj_female=0.00000e+00;nhomalt_asj_female=0;non_neuro_AC_eas=0;non_neuro_AN_eas=308;non_neuro_AF_eas=0.00000e+00;non_neuro_nhomalt_eas=0;non_neuro_AC_male=1;non_neuro_AN_male=1386;non_neuro_AF_male=7.21501e-04;non_neuro_nhomalt_male=0;AC_asj=0;AN_asj=12;AF_asj=0.00000e+00;nhomalt_asj=0;controls_AC_nfe_est=0;controls_AN_nfe_est=356;controls_AF_nfe_est=0.00000e+00;controls_nhomalt_nfe_est=0;non_topmed_AC_asj_female=0;non_topmed_AN_asj_female=6;non_topmed_AF_asj_female=0.00000e+00;non_topmed_nhomalt_asj_female=0;non_topmed_AC_oth=0;non_topmed_AN_oth=116;non_topmed_AF_oth=0.00000e+00;non_topmed_nhomalt_oth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n_cancer_AF_nfe_onf=0.00000e+00;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_AF_nfe_swe=0.00000e+00;non_cancer_AF_oth=0.00000e+00;non_cancer_AF_oth_female=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_popmax=9.86077e-06;non_cancer_AF_raw=4.22372e-06;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_female=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=235186;non_cancer_AN_afr=14890;non_cancer_AN_afr_female=9222;non_cancer_AN_afr_male=5668;non_cancer_AN_amr=34112;non_cancer_AN_amr_female=19994;non_cancer_AN_amr_male=14118;non_cancer_AN_asj=9478;non_cancer_AN_asj_female=4554;non_cancer_AN_asj_male=4924;non_cancer_AN_eas=17684;non_cancer_AN_eas_female=8948;non_cancer_AN_eas_jpn=122;non_cancer_AN_eas_kor=3774;non_cancer_AN_eas_male=8736;non_cancer_AN_eas_oea=13788;non_cancer_AN_female=106966;non_cancer_AN_fin=21564;non_cancer_AN_fin_female=10326;non_cancer_AN_fin_male=11238;non_cancer_AN_male=128220;non_cancer_AN_nfe=101412;non_cancer_AN_nfe_bgr=2524;non_cancer_AN_nfe_est=156;non_cancer_AN_nfe_female=43780;non_cancer_AN_nfe_male=57632;non_cancer_AN_nfe_nwe=38662;non_cancer_AN_nfe_onf=24278;non_cancer_AN_nfe_seu=10516;non_cancer_AN_nfe_swe=25276;non_cancer_AN_oth=5572;non_cancer_AN_oth_female=2654;non_cancer_AN_oth_male=2918;non_cancer_AN_popmax=101412;non_cancer_AN_raw=236758;non_cancer_AN_sas=30474;non_cancer_AN_sas_female=7488;non_cancer_AN_sas_male=22986;non_cancer_faf95=0.00000e+00;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=0.00000e+00;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=0.00000e+00;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_popmax=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_cancer_popmax=nfe;non_neuro_AC=1;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=0;non_neuro_AC_amr_female=0;non_neuro_AC_amr_male=0;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=0;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=1;non_neuro_AC_nfe=1;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=0;non_neuro_AC_nfe_male=1;non_neuro_AC_nfe_nwe=1;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=0;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=1;non_neuro_AC_raw=1;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF=4.82044e-06;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_female=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=0.00000e+00;non_neuro_AF_amr_female=0.00000e+00;non_neuro_AF_amr_male=0.00000e+00;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_female=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=0.00000e+00;non_neuro_AF_eas_female=0.00000e+00;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_AF_eas_male=0.00000e+00;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_female=0.00000e+00;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_female=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=8.91902e-06;non_neuro_AF_nfe=1.12130e-05;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_AF_nfe_male=2.01898e-05;non_neuro_AF_nfe_nwe=2.84560e-05;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_female=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=1.12130e-05;non_neuro_AF_raw=4.80464e-06;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_female=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=207450;non_neuro_AN_afr=16204;non_neuro_AN_afr_female=10042;non_neuro_AN_afr_male=6162;non_neuro_AN_amr=30392;non_neuro_AN_amr_female=18180;non_neuro_AN_amr_male=12212;non_neuro_AN_asj=6162;non_neuro_AN_asj_female=3062;non_neuro_AN_asj_male=3100;non_neuro_AN_eas=13414;non_neuro_AN_eas_female=6842;non_neuro_AN_eas_jpn=150;non_neuro_AN_eas_kor=3816;non_neuro_AN_eas_male=6572;non_neuro_AN_eas_oea=9448;non_neuro_AN_female=95330;non_neuro_AN_fin=16698;non_neuro_AN_fin_female=7636;non_neuro_AN_fin_male=9062;non_neuro_AN_male=112120;non_neuro_AN_nfe=89182;non_neuro_AN_nfe_bgr=452;non_neuro_AN_nfe_est=216;non_neuro_AN_nfe_female=39652;non_neuro_AN_nfe_male=49530;non_neuro_AN_nfe_nwe=35142;non_neuro_AN_nfe_onf=27676;non_neuro_AN_nfe_seu=10922;non_neuro_AN_nfe_swe=14774;non_neuro_AN_oth=4842;non_neuro_AN_oth_female=2380;non_neuro_AN_oth_male=2462;non_neuro_AN_popmax=89182;non_neuro_AN_raw=208132;non_neuro_AN_sas=30556;non_neuro_AN_sas_female=7536;non_neuro_AN_sas_male=23020;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=nfe;non_topmed_AC=1;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_female=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=0;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=1;non_topmed_AC_nfe=1;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=0;non_topmed_AC_nfe_male=1;non_topmed_AC_nfe_nwe=1;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=1;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=4.11367e-06;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_female=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=0.00000e+00;non_topmed_AF_amr_female=0.00000e+00;non_topmed_AF_amr_male=0.00000e+00;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_female=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_female=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_female=0.00000e+00;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_female=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=7.54614e-06;non_topmed_AF_nfe=9.06405e-06;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_AF_nfe_male=1.61166e-05;non_topmed_AF_nfe_nwe=2.48423e-05;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_female=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=9.06405e-06;non_topmed_AF_raw=4.08700e-06;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_female=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=243092;non_topmed_AN_afr=12012;non_topmed_AN_afr_female=7330;non_topmed_AN_afr_male=4682;non_topmed_AN_amr=34310;non_topmed_AN_amr_female=20102;non_topmed_AN_amr_male=14208;non_topmed_AN_asj=9904;non_topmed_AN_asj_female=4812;non_topmed_AN_asj_male=5092;non_topmed_AN_eas=18382;non_topmed_AN_eas_female=9328;non_topmed_AN_eas_jpn=150;non_topmed_AN_eas_kor=3818;non_topmed_AN_eas_male=9054;non_topmed_AN_eas_oea=14414;non_topmed_AN_female=110574;non_topmed_AN_fin=21578;non_topmed_AN_fin_female=10336;non_topmed_AN_fin_male=11242;non_topmed_AN_male=132518;non_topmed_AN_nfe=110326;non_topmed_AN_nfe_bgr=2660;non_topmed_AN_nfe_est=236;non_topmed_AN_nfe_female=48278;non_topmed_AN_nfe_male=62048;non_topmed_AN_nfe_nwe=40254;non_topmed_AN_nfe_onf=29808;non_topmed_AN_nfe_seu=11312;non_topmed_AN_nfe_swe=26056;non_topmed_AN_oth=6016;non_topmed_AN_oth_female=2850;non_topmed_AN_oth_male=3166;non_topmed_AN_popmax=110326;non_topmed_AN_raw=244678;non_topmed_AN_sas=30564;non_topmed_AN_sas_female=7538;non_topmed_AN_sas_male=23026;non_topmed_faf95=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_female=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_female=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_female=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_female=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_female=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_female=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_female=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_popmax=0;non_topmed_nhomalt_raw=0;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;non_topmed_popmax=nfe;pab_max=1.00000e+00;popmax=nfe;rf_tp_probability=8.55653e-01;segdup;variant_type=multi-snv;vep=A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000381657|protein_coding||1/6|ENST00000381657.2:c.-21-26C>A||||||||1||1||SNV|1|HGNC|23148|YES|||CCDS14103.1|ENSP00000371073|Q9NUJ7|K7EIC3&C9JP92|UPI0000048190||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000381663|protein_coding||1/7|ENST00000381663.3:c.-21-26C>A||||||||1||1||SNV|1|HGNC|23148||||CCDS14103.1|ENSP00000371079|Q9NUJ7|K7EIC3&C9JP92|UPI0000048190||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000399012|protein_coding||2/7|ENST00000399012.1:c.-21-26C>A||||||||1||1||SNV|1|HGNC|23148||||CCDS14103.1|ENSP00000381976|Q9NUJ7|K7EIC3&C9JP92|UPI0000048190||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000415337|protein_coding||1/4|ENST00000415337.1:c.-21-26C>A||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000399510||K7EIC3&C9JP92|UPI0000EE0745||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000429181|protein_coding||2/3|ENST00000429181.1:c.-21-26C>A||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000400904||K7EIC3|UPI0000EE0749||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000430923|protein_coding||1/4|ENST00000430923.2:c.-21-26C>A||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000394848||K7EIC3&C9JP92|UPI0000EE0744||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000443019|protein_coding||1/2|ENST00000443019.1:c.-21-26C>A||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000408558||K7EIC3|UPI0000EE0747||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000445062|protein_coding||2/3|ENST00000445062.1:c.-21-26C>A||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000412018||K7EIC3|UPI0000EE0748||||||||||||||||||||||||||||||||||,A|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000447472|protein_coding||1/4|ENST00000447472.1:c.-21-26C>A||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000405307||K7EIC3&C9JP92|UPI0000EE0744||||||||||||||||||||||||||||||||||,A|5_prime_UTR_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000448477|protein_coding|1/3||ENST00000448477.1:c.-47C>A||408||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000414181||K7EIC3|UPI0000EE0746||||||||||||||||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000484611|processed_transcript||1/4|ENST00000484611.2:n.72-26C>A||||||||1||1||SNV|1|HGNC|23148||||||||||||||||||||||||||||||||||||||||||,A|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001555582|promoter|||||||||||1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +chrX 284141 rs764715109 C G 3817.77 PASS AC=1;AC_afr=0;AC_afr_female=0;AC_afr_male=0;AC_amr=0;AC_amr_female=0;AC_amr_male=0;AC_asj=0;AC_asj_female=0;AC_asj_male=0;AC_eas=0;AC_eas_female=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_female=1;AC_fin=0;AC_fin_female=0;AC_fin_male=0;AC_male=0;AC_nfe=1;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_female=1;AC_nfe_male=0;AC_nfe_nwe=0;AC_nfe_onf=1;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_female=0;AC_oth_male=0;AC_popmax=1;AC_raw=1;AC_sas=0;AC_sas_female=0;AC_sas_male=0;AF=4.00471e-06;AF_afr=0.00000e+00;AF_afr_female=0.00000e+00;AF_afr_male=0.00000e+00;AF_amr=0.00000e+00;AF_amr_female=0.00000e+00;AF_amr_male=0.00000e+00;AF_asj=0.00000e+00;AF_asj_female=0.00000e+00;AF_asj_male=0.00000e+00;AF_eas=0.00000e+00;AF_eas_female=0.00000e+00;AF_eas_jpn=0.00000e+00;AF_eas_kor=0.00000e+00;AF_eas_male=0.00000e+00;AF_eas_oea=0.00000e+00;AF_female=8.70913e-06;AF_fin=0.00000e+00;AF_fin_female=0.00000e+00;AF_fin_male=0.00000e+00;AF_male=0.00000e+00;AF_nfe=8.89569e-06;AF_nfe_bgr=0.00000e+00;AF_nfe_est=0.00000e+00;AF_nfe_female=2.01515e-05;AF_nfe_male=0.00000e+00;AF_nfe_nwe=0.00000e+00;AF_nfe_onf=3.26712e-05;AF_nfe_seu=0.00000e+00;AF_nfe_swe=0.00000e+00;AF_oth=0.00000e+00;AF_oth_female=0.00000e+00;AF_oth_male=0.00000e+00;AF_popmax=8.89569e-06;AF_raw=3.97937e-06;AF_sas=0.00000e+00;AF_sas_female=0.00000e+00;AF_sas_male=0.00000e+00;AN=249706;AN_afr=16240;AN_afr_female=10058;AN_afr_male=6182;AN_amr=34444;AN_amr_female=20178;AN_amr_male=14266;AN_asj=9986;AN_asj_female=4858;AN_asj_male=5128;AN_eas=18386;AN_eas_female=9328;AN_eas_jpn=150;AN_eas_kor=3818;AN_eas_male=9058;AN_eas_oea=14418;AN_female=114822;AN_fin=21580;AN_fin_female=10338;AN_fin_male=11242;AN_male=134884;AN_nfe=112414;AN_nfe_bgr=2668;AN_nfe_est=240;AN_nfe_female=49624;AN_nfe_male=62790;AN_nfe_nwe=41372;AN_nfe_onf=30608;AN_nfe_seu=11408;AN_nfe_swe=26118;AN_oth=6092;AN_oth_female=2900;AN_oth_male=3192;AN_popmax=112414;AN_raw=251296;AN_sas=30564;AN_sas_female=7538;AN_sas_male=23026;BaseQRankSum=1.03000e-01;ClippingRankSum=-1.54000e-01;DP=12097154;FS=5.64100e+00;InbreedingCoeff=6.30000e-03;MQ=5.99600e+01;MQRankSum=-5.13000e-01;OriginalContig=X;OriginalStart=200808;QD=1.04000e+01;ReadPosRankSum=1.13000e+00;SOR=1.11400e+00;VQSLOD=-7.25700e-01;VQSR_culprit=MQ;ab_hist_alt_bin_freq=0|0|0|0|0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=1;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=1;controls_AC_afr=0;controls_AC_afr_female=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_female=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_female=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_female=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_female=1;controls_AC_fin=0;controls_AC_fin_female=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=1;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_female=1;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=1;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_female=0;controls_AC_oth_male=0;controls_AC_popmax=1;controls_AC_raw=1;controls_AC_sas=0;controls_AC_sas_female=0;controls_AC_sas_male=0;controls_AF=9.16994e-06;controls_AF_afr=0.00000e+00;controls_AF_afr_female=0.00000e+00;controls_AF_afr_male=0.00000e+00;controls_AF_amr=0.00000e+00;controls_AF_amr_female=0.00000e+00;controls_AF_amr_male=0.00000e+00;controls_AF_asj=0.00000e+00;controls_AF_asj_female=0.00000e+00;controls_AF_asj_male=0.00000e+00;controls_AF_eas=0.00000e+00;controls_AF_eas_female=0.00000e+00;controls_AF_eas_jpn=0.00000e+00;controls_AF_eas_kor=0.00000e+00;controls_AF_eas_male=0.00000e+00;controls_AF_eas_oea=0.00000e+00;controls_AF_female=1.95572e-05;controls_AF_fin=0.00000e+00;controls_AF_fin_female=0.00000e+00;controls_AF_fin_male=0.00000e+00;controls_AF_male=0.00000e+00;controls_AF_nfe=2.34984e-05;controls_AF_nfe_bgr=0.00000e+00;controls_AF_nfe_est=0.00000e+00;controls_AF_nfe_female=5.24714e-05;controls_AF_nfe_male=0.00000e+00;controls_AF_nfe_nwe=0.00000e+00;controls_AF_nfe_onf=1.00705e-04;controls_AF_nfe_seu=0.00000e+00;controls_AF_nfe_swe=0.00000e+00;controls_AF_oth=0.00000e+00;controls_AF_oth_female=0.00000e+00;controls_AF_oth_male=0.00000e+00;controls_AF_popmax=2.34984e-05;controls_AF_raw=9.14043e-06;controls_AF_sas=0.00000e+00;controls_AF_sas_female=0.00000e+00;controls_AF_sas_male=0.00000e+00;controls_AN=109052;controls_AN_afr=7162;controls_AN_afr_female=4238;controls_AN_afr_male=2924;controls_AN_amr=17052;controls_AN_amr_female=10188;controls_AN_amr_male=6864;controls_AN_asj=2302;controls_AN_asj_female=1206;controls_AN_asj_male=1096;controls_AN_eas=9046;controls_AN_eas_female=4788;controls_AN_eas_jpn=114;controls_AN_eas_kor=1888;controls_AN_eas_male=4258;controls_AN_eas_oea=7044;controls_AN_female=51132;controls_AN_fin=13364;controls_AN_fin_female=6462;controls_AN_fin_male=6902;controls_AN_male=57920;controls_AN_nfe=42556;controls_AN_nfe_bgr=678;controls_AN_nfe_est=70;controls_AN_nfe_female=19058;controls_AN_nfe_male=23498;controls_AN_nfe_nwe=14324;controls_AN_nfe_onf=9930;controls_AN_nfe_seu=4748;controls_AN_nfe_swe=12806;controls_AN_oth=1906;controls_AN_oth_female=984;controls_AN_oth_male=922;controls_AN_popmax=42556;controls_AN_raw=109404;controls_AN_sas=15664;controls_AN_sas_female=4208;controls_AN_sas_male=11456;controls_faf95=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf95_nfe=1.00000e-06;controls_faf95_sas=0.00000e+00;controls_faf99=0.00000e+00;controls_faf99_afr=0.00000e+00;controls_faf99_amr=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf99_nfe=1.00000e-06;controls_faf99_sas=0.00000e+00;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_female=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_female=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_female=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_female=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_female=0;controls_nhomalt_fin=0;controls_nhomalt_fin_female=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_female=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_female=0;controls_nhomalt_oth_male=0;controls_nhomalt_popmax=0;controls_nhomalt_raw=0;controls_nhomalt_sas=0;controls_nhomalt_sas_female=0;controls_nhomalt_sas_male=0;controls_popmax=nfe;dp_hist_all_bin_freq=692|948|2668|7622|15099|15313|13976|12695|9752|6973|4577|3815|3535|3604|3797|3983|4230|4251|4217|4789;dp_hist_all_n_larger=37795;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=1;faf95=0.00000e+00;faf95_afr=0.00000e+00;faf95_amr=0.00000e+00;faf95_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf95_sas=0.00000e+00;faf99=0.00000e+00;faf99_afr=0.00000e+00;faf99_amr=0.00000e+00;faf99_eas=0.00000e+00;faf99_nfe=0.00000e+00;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=169|242|214|432|610|523|1237|2065|1457|3793|4726|3000|8154|4325|5138|4621|6898|1900|5997|108557;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1;n_alt_alleles=3;nhomalt=0;nhomalt_afr=0;nhomalt_afr_female=0;nhomalt_afr_male=0;nhomalt_amr=0;nhomalt_amr_female=0;nhomalt_amr_male=0;nhomalt_asj=0;nhomalt_asj_female=0;nhomalt_asj_male=0;nhomalt_eas=0;nhomalt_eas_female=0;nhomalt_eas_jpn=0;nhomalt_eas_kor=0;nhomalt_eas_male=0;nhomalt_eas_oea=0;nhomalt_female=0;nhomalt_fin=0;nhomalt_fin_female=0;nhomalt_fin_male=0;nhomalt_male=0;nhomalt_nfe=0;nhomalt_nfe_bgr=0;nhomalt_nfe_est=0;nhomalt_nfe_female=0;nhomalt_nfe_male=0;nhomalt_nfe_nwe=0;nhomalt_nfe_onf=0;nhomalt_nfe_seu=0;nhomalt_nfe_swe=0;nhomalt_oth=0;nhomalt_oth_female=0;nhomalt_oth_male=0;nhomalt_popmax=0;nhomalt_raw=0;nhomalt_sas=0;nhomalt_sas_female=0;nhomalt_sas_male=0;non_cancer_AC=1;non_cancer_AC_afr=0;non_cancer_AC_afr_female=0;non_cancer_AC_afr_male=0;non_cancer_AC_amr=0;non_cancer_AC_amr_female=0;non_cancer_AC_amr_male=0;non_cancer_AC_asj=0;non_cancer_AC_asj_female=0;non_cancer_AC_asj_male=0;non_cancer_AC_eas=0;non_cancer_AC_eas_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AC_eas_kor=0;non_cancer_AC_eas_male=0;non_cancer_AC_eas_oea=0;non_cancer_AC_female=1;non_cancer_AC_fin=0;non_cancer_AC_fin_female=0;non_cancer_AC_fin_male=0;non_cancer_AC_male=0;non_cancer_AC_nfe=1;non_cancer_AC_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AC_nfe_female=1;non_cancer_AC_nfe_male=0;non_cancer_AC_nfe_nwe=0;non_cancer_AC_nfe_onf=1;non_cancer_AC_nfe_seu=0;non_cancer_AC_nfe_swe=0;non_cancer_AC_oth=0;non_cancer_AC_oth_female=0;non_cancer_AC_oth_male=0;non_cancer_AC_popmax=1;non_cancer_AC_raw=1;non_cancer_AC_sas=0;non_cancer_AC_sas_female=0;non_cancer_AC_sas_male=0;non_cancer_AF=4.25195e-06;non_cancer_AF_afr=0.00000e+00;non_cancer_AF_afr_female=0.00000e+00;non_cancer_AF_afr_male=0.00000e+00;non_cancer_AF_amr=0.00000e+00;non_cancer_AF_amr_female=0.00000e+00;non_cancer_AF_amr_male=0.00000e+00;non_cancer_AF_asj=0.00000e+00;non_cancer_AF_asj_female=0.00000e+00;non_cancer_AF_asj_male=0.00000e+00;non_cancer_AF_eas=0.00000e+00;non_cancer_AF_eas_female=0.00000e+00;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_AF_eas_kor=0.00000e+00;non_cancer_AF_eas_male=0.00000e+00;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_AF_female=9.34877e-06;non_cancer_AF_fin=0.00000e+00;non_cancer_AF_fin_female=0.00000e+00;non_cancer_AF_fin_male=0.00000e+00;non_cancer_AF_male=0.00000e+00;non_cancer_AF_nfe=9.86077e-06;non_cancer_AF_nfe_bgr=0.00000e+00;non_cancer_AF_nfe_est=0.00000e+00;non_cancer_AF_nfe_female=2.28415e-05;non_cancer_AF_nfe_male=0.00000e+00;non_cancer_AF_nfe_nwe=0.00000e+00;non_cancer_AF_nfe_onf=4.11896e-05;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_AF_nfe_swe=0.00000e+00;non_cancer_AF_oth=0.00000e+00;non_cancer_AF_oth_female=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_popmax=9.86077e-06;non_cancer_AF_raw=4.22372e-06;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_female=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=235186;non_cancer_AN_afr=14890;non_cancer_AN_afr_female=9222;non_cancer_AN_afr_male=5668;non_cancer_AN_amr=34112;non_cancer_AN_amr_female=19994;non_cancer_AN_amr_male=14118;non_cancer_AN_asj=9478;non_cancer_AN_asj_female=4554;non_cancer_AN_asj_male=4924;non_cancer_AN_eas=17684;non_cancer_AN_eas_female=8948;non_cancer_AN_eas_jpn=122;non_cancer_AN_eas_kor=3774;non_cancer_AN_eas_male=8736;non_cancer_AN_eas_oea=13788;non_cancer_AN_female=106966;non_cancer_AN_fin=21564;non_cancer_AN_fin_female=10326;non_cancer_AN_fin_male=11238;non_cancer_AN_male=128220;non_cancer_AN_nfe=101412;non_cancer_AN_nfe_bgr=2524;non_cancer_AN_nfe_est=156;non_cancer_AN_nfe_female=43780;non_cancer_AN_nfe_male=57632;non_cancer_AN_nfe_nwe=38662;non_cancer_AN_nfe_onf=24278;non_cancer_AN_nfe_seu=10516;non_cancer_AN_nfe_swe=25276;non_cancer_AN_oth=5572;non_cancer_AN_oth_female=2654;non_cancer_AN_oth_male=2918;non_cancer_AN_popmax=101412;non_cancer_AN_raw=236758;non_cancer_AN_sas=30474;non_cancer_AN_sas_female=7488;non_cancer_AN_sas_male=22986;non_cancer_faf95=0.00000e+00;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=0.00000e+00;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=0.00000e+00;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=0.00000e+00;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_popmax=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_cancer_popmax=nfe;non_neuro_AC=1;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=0;non_neuro_AC_amr_female=0;non_neuro_AC_amr_male=0;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=1;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=0;non_neuro_AC_nfe=1;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=1;non_neuro_AC_nfe_male=0;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=1;non_neuro_AC_nfe_seu=0;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=1;non_neuro_AC_raw=1;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF=4.82044e-06;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_female=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=0.00000e+00;non_neuro_AF_amr_female=0.00000e+00;non_neuro_AF_amr_male=0.00000e+00;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_female=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=0.00000e+00;non_neuro_AF_eas_female=0.00000e+00;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_AF_eas_male=0.00000e+00;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_female=1.04899e-05;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_female=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=0.00000e+00;non_neuro_AF_nfe=1.12130e-05;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_female=2.52194e-05;non_neuro_AF_nfe_male=0.00000e+00;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=3.61324e-05;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_female=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=1.12130e-05;non_neuro_AF_raw=4.80464e-06;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_female=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=207450;non_neuro_AN_afr=16204;non_neuro_AN_afr_female=10042;non_neuro_AN_afr_male=6162;non_neuro_AN_amr=30392;non_neuro_AN_amr_female=18180;non_neuro_AN_amr_male=12212;non_neuro_AN_asj=6162;non_neuro_AN_asj_female=3062;non_neuro_AN_asj_male=3100;non_neuro_AN_eas=13414;non_neuro_AN_eas_female=6842;non_neuro_AN_eas_jpn=150;non_neuro_AN_eas_kor=3816;non_neuro_AN_eas_male=6572;non_neuro_AN_eas_oea=9448;non_neuro_AN_female=95330;non_neuro_AN_fin=16698;non_neuro_AN_fin_female=7636;non_neuro_AN_fin_male=9062;non_neuro_AN_male=112120;non_neuro_AN_nfe=89182;non_neuro_AN_nfe_bgr=452;non_neuro_AN_nfe_est=216;non_neuro_AN_nfe_female=39652;non_neuro_AN_nfe_male=49530;non_neuro_AN_nfe_nwe=35142;non_neuro_AN_nfe_onf=27676;non_neuro_AN_nfe_seu=10922;non_neuro_AN_nfe_swe=14774;non_neuro_AN_oth=4842;non_neuro_AN_oth_female=2380;non_neuro_AN_oth_male=2462;non_neuro_AN_popmax=89182;non_neuro_AN_raw=208132;non_neuro_AN_sas=30556;non_neuro_AN_sas_female=7536;non_neuro_AN_sas_male=23020;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=nfe;non_topmed_AC=1;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_female=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=1;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=0;non_topmed_AC_nfe=1;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=1;non_topmed_AC_nfe_male=0;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=1;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=1;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=4.11367e-06;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_female=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=0.00000e+00;non_topmed_AF_amr_female=0.00000e+00;non_topmed_AF_amr_male=0.00000e+00;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_female=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_female=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_female=9.04372e-06;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_female=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=0.00000e+00;non_topmed_AF_nfe=9.06405e-06;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_female=2.07134e-05;non_topmed_AF_nfe_male=0.00000e+00;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=3.35480e-05;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_female=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=9.06405e-06;non_topmed_AF_raw=4.08700e-06;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_female=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=243092;non_topmed_AN_afr=12012;non_topmed_AN_afr_female=7330;non_topmed_AN_afr_male=4682;non_topmed_AN_amr=34310;non_topmed_AN_amr_female=20102;non_topmed_AN_amr_male=14208;non_topmed_AN_asj=9904;non_topmed_AN_asj_female=4812;non_topmed_AN_asj_male=5092;non_topmed_AN_eas=18382;non_topmed_AN_eas_female=9328;non_topmed_AN_eas_jpn=150;non_topmed_AN_eas_kor=3818;non_topmed_AN_eas_male=9054;non_topmed_AN_eas_oea=14414;non_topmed_AN_female=110574;non_topmed_AN_fin=21578;non_topmed_AN_fin_female=10336;non_topmed_AN_fin_male=11242;non_topmed_AN_male=132518;non_topmed_AN_nfe=110326;non_topmed_AN_nfe_bgr=2660;non_topmed_AN_nfe_est=236;non_topmed_AN_nfe_female=48278;non_topmed_AN_nfe_male=62048;non_topmed_AN_nfe_nwe=40254;non_topmed_AN_nfe_onf=29808;non_topmed_AN_nfe_seu=11312;non_topmed_AN_nfe_swe=26056;non_topmed_AN_oth=6016;non_topmed_AN_oth_female=2850;non_topmed_AN_oth_male=3166;non_topmed_AN_popmax=110326;non_topmed_AN_raw=244678;non_topmed_AN_sas=30564;non_topmed_AN_sas_female=7538;non_topmed_AN_sas_male=23026;non_topmed_faf95=0.00000e+00;non_topmed_faf95_afr=0.00000e+00;non_topmed_faf95_amr=0.00000e+00;non_topmed_faf95_eas=0.00000e+00;non_topmed_faf95_nfe=0.00000e+00;non_topmed_faf95_sas=0.00000e+00;non_topmed_faf99=0.00000e+00;non_topmed_faf99_afr=0.00000e+00;non_topmed_faf99_amr=0.00000e+00;non_topmed_faf99_eas=0.00000e+00;non_topmed_faf99_nfe=0.00000e+00;non_topmed_faf99_sas=0.00000e+00;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_female=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_female=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_female=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_female=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_female=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_female=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_female=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_female=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_popmax=0;non_topmed_nhomalt_raw=0;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_female=0;non_topmed_nhomalt_sas_male=0;non_topmed_popmax=nfe;pab_max=9.47934e-06;popmax=nfe;rf_tp_probability=7.29954e-01;segdup;variant_type=multi-snv;vep=G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000381657|protein_coding||1/6|ENST00000381657.2:c.-21-26C>G||||||||1||1||SNV|1|HGNC|23148|YES|||CCDS14103.1|ENSP00000371073|Q9NUJ7|K7EIC3&C9JP92|UPI0000048190||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000381663|protein_coding||1/7|ENST00000381663.3:c.-21-26C>G||||||||1||1||SNV|1|HGNC|23148||||CCDS14103.1|ENSP00000371079|Q9NUJ7|K7EIC3&C9JP92|UPI0000048190||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000399012|protein_coding||2/7|ENST00000399012.1:c.-21-26C>G||||||||1||1||SNV|1|HGNC|23148||||CCDS14103.1|ENSP00000381976|Q9NUJ7|K7EIC3&C9JP92|UPI0000048190||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000415337|protein_coding||1/4|ENST00000415337.1:c.-21-26C>G||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000399510||K7EIC3&C9JP92|UPI0000EE0745||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000429181|protein_coding||2/3|ENST00000429181.1:c.-21-26C>G||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000400904||K7EIC3|UPI0000EE0749||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000430923|protein_coding||1/4|ENST00000430923.2:c.-21-26C>G||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000394848||K7EIC3&C9JP92|UPI0000EE0744||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000443019|protein_coding||1/2|ENST00000443019.1:c.-21-26C>G||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000408558||K7EIC3|UPI0000EE0747||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000445062|protein_coding||2/3|ENST00000445062.1:c.-21-26C>G||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000412018||K7EIC3|UPI0000EE0748||||||||||||||||||||||||||||||||||,G|intron_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000447472|protein_coding||1/4|ENST00000447472.1:c.-21-26C>G||||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000405307||K7EIC3&C9JP92|UPI0000EE0744||||||||||||||||||||||||||||||||||,G|5_prime_UTR_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000448477|protein_coding|1/3||ENST00000448477.1:c.-47C>G||408||||||1||1|cds_end_NF|SNV|1|HGNC|23148|||||ENSP00000414181||K7EIC3|UPI0000EE0746||||||||||||||||||||||||||||||||||,G|intron_variant&non_coding_transcript_variant|MODIFIER|PLCXD1|ENSG00000182378|Transcript|ENST00000484611|processed_transcript||1/4|ENST00000484611.2:n.72-26C>G||||||||1||1||SNV|1|HGNC|23148||||||||||||||||||||||||||||||||||||||||||,G|regulatory_region_variant|MODIFIER|||RegulatoryFeature|ENSR00001555582|promoter|||||||||||1||||SNV|1|||||||||||||||||||||||||||||||||||||||||||| +chrX 284141 rs764715109 C T 3817.77 PASS AC=2;AC_afr=0;AC_afr_female=0;AC_afr_male=0;AC_amr=1;AC_amr_female=1;AC_amr_male=0;AC_asj=0;AC_asj_female=0;AC_asj_male=0;AC_eas=0;AC_eas_female=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_female=1;AC_fin=0;AC_fin_female=0;AC_fin_male=0;AC_male=1;AC_nfe=1;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_female=0;AC_nfe_male=1;AC_nfe_nwe=0;AC_nfe_onf=0;AC_nfe_seu=1;AC_nfe_swe=0;AC_oth=0;AC_oth_female=0;AC_oth_male=0;AC_popmax=1;AC_raw=2;AC_sas=0;AC_sas_female=0;AC_sas_male=0;AF=8.00942e-06;AF_afr=0.00000e+00;AF_afr_female=0.00000e+00;AF_afr_male=0.00000e+00;AF_amr=2.90326e-05;AF_amr_female=4.95589e-05;AF_amr_male=0.00000e+00;AF_asj=0.00000e+00;AF_asj_female=0.00000e+00;AF_asj_male=0.00000e+00;AF_eas=0.00000e+00;AF_eas_female=0.00000e+00;AF_eas_jpn=0.00000e+00;AF_eas_kor=0.00000e+00;AF_eas_male=0.00000e+00;AF_eas_oea=0.00000e+00;AF_female=8.70913e-06;AF_fin=0.00000e+00;AF_fin_female=0.00000e+00;AF_fin_male=0.00000e+00;AF_male=7.41378e-06;AF_nfe=8.89569e-06;AF_nfe_bgr=0.00000e+00;AF_nfe_est=0.00000e+00;AF_nfe_female=0.00000e+00;AF_nfe_male=1.59261e-05;AF_nfe_nwe=0.00000e+00;AF_nfe_onf=0.00000e+00;AF_nfe_seu=8.76578e-05;AF_nfe_swe=0.00000e+00;AF_oth=0.00000e+00;AF_oth_female=0.00000e+00;AF_oth_male=0.00000e+00;AF_popmax=2.90326e-05;AF_raw=7.95874e-06;AF_sas=0.00000e+00;AF_sas_female=0.00000e+00;AF_sas_male=0.00000e+00;AN=249706;AN_afr=16240;AN_afr_female=10058;AN_afr_male=6182;AN_amr=34444;AN_amr_female=20178;AN_amr_male=14266;AN_asj=9986;AN_asj_female=4858;AN_asj_male=5128;AN_eas=18386;AN_eas_female=9328;AN_eas_jpn=150;AN_eas_kor=3818;AN_eas_male=9058;AN_eas_oea=14418;AN_female=114822;AN_fin=21580;AN_fin_female=10338;AN_fin_male=11242;AN_male=134884;AN_nfe=112414;AN_nfe_bgr=2668;AN_nfe_est=240;AN_nfe_female=49624;AN_nfe_male=62790;AN_nfe_nwe=41372;AN_nfe_onf=30608;AN_nfe_seu=11408;AN_nfe_swe=26118;AN_oth=6092;AN_oth_female=2900;AN_oth_male=3192;AN_popmax=34444;AN_raw=251296;AN_sas=30564;AN_sas_female=7538;AN_sas_male=23026;BaseQRankSum=1.03000e-01;ClippingRankSum=-1.54000e-01;DP=12097154;FS=5.64100e+00;InbreedingCoeff=6.30000e-03;MQ=5.99600e+01;MQRankSum=-5.13000e-01;OriginalContig=X;OriginalStart=200808;QD=1.04000e+01;ReadPosRankSum=1.13000e+00;SOR=1.11400e+00;VQSLOD=-7.25700e-01;VQSR_culprit=MQ;ab_hist_alt_bin_freq=0|0|0|0|0|0|1|0|1|0|1|0|0|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|1|0|0|0|0|1|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=0;controls_AC_afr=0;controls_AC_afr_female=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_female=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_female=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_female=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_female=0;controls_AC_fin=0;controls_AC_fin_female=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_female=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_female=0;controls_AC_oth_male=0;controls_AC_raw=0;controls_AC_sas=0;controls_AC_sas_female=0;controls_AC_sas_male=0;controls_AF=0.00000e+00;controls_AF_afr=0.00000e+00;controls_AF_afr_female=0.00000e+00;controls_AF_afr_male=0.00000e+00;controls_AF_amr=0.00000e+00;controls_AF_amr_female=0.00000e+00;controls_AF_amr_male=0.00000e+00;controls_AF_asj=0.00000e+00;controls_AF_asj_female=0.00000e+00;controls_AF_asj_male=0.00000e+00;controls_AF_eas=0.00000e+00;controls_AF_eas_female=0.00000e+00;controls_AF_eas_jpn=0.00000e+00;controls_AF_eas_kor=0.00000e+00;controls_AF_eas_male=0.00000e+00;controls_AF_eas_oea=0.00000e+00;controls_AF_female=0.00000e+00;controls_AF_fin=0.00000e+00;controls_AF_fin_female=0.00000e+00;controls_AF_fin_male=0.00000e+00;controls_AF_male=0.00000e+00;controls_AF_nfe=0.00000e+00;controls_AF_nfe_bgr=0.00000e+00;controls_AF_nfe_est=0.00000e+00;controls_AF_nfe_female=0.00000e+00;controls_AF_nfe_male=0.00000e+00;controls_AF_nfe_nwe=0.00000e+00;controls_AF_nfe_onf=0.00000e+00;controls_AF_nfe_seu=0.00000e+00;controls_AF_nfe_swe=0.00000e+00;controls_AF_oth=0.00000e+00;controls_AF_oth_female=0.00000e+00;controls_AF_oth_male=0.00000e+00;controls_AF_raw=0.00000e+00;controls_AF_sas=0.00000e+00;controls_AF_sas_female=0.00000e+00;controls_AF_sas_male=0.00000e+00;controls_AN=109052;controls_AN_afr=7162;controls_AN_afr_female=4238;controls_AN_afr_male=2924;controls_AN_amr=17052;controls_AN_amr_female=10188;controls_AN_amr_male=6864;controls_AN_asj=2302;controls_AN_asj_female=1206;controls_AN_asj_male=1096;controls_AN_eas=9046;controls_AN_eas_female=4788;controls_AN_eas_jpn=114;controls_AN_eas_kor=1888;controls_AN_eas_male=4258;controls_AN_eas_oea=7044;controls_AN_female=51132;controls_AN_fin=13364;controls_AN_fin_female=6462;controls_AN_fin_male=6902;controls_AN_male=57920;controls_AN_nfe=42556;controls_AN_nfe_bgr=678;controls_AN_nfe_est=70;controls_AN_nfe_female=19058;controls_AN_nfe_male=23498;controls_AN_nfe_nwe=14324;controls_AN_nfe_onf=9930;controls_AN_nfe_seu=4748;controls_AN_nfe_swe=12806;controls_AN_oth=1906;controls_AN_oth_female=984;controls_AN_oth_male=922;controls_AN_raw=109404;controls_AN_sas=15664;controls_AN_sas_female=4208;controls_AN_sas_male=11456;controls_faf95=0.00000e+00;controls_faf95_afr=0.00000e+00;controls_faf95_amr=0.00000e+00;controls_faf95_eas=0.00000e+00;controls_faf95_nfe=0.00000e+00;controls_faf95_sas=0.00000e+00;controls_faf99=0.00000e+00;controls_faf99_afr=0.00000e+00;controls_faf99_amr=0.00000e+00;controls_faf99_eas=0.00000e+00;controls_faf99_nfe=0.00000e+00;controls_faf99_sas=0.00000e+00;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_female=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_female=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_female=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_female=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_female=0;controls_nhomalt_fin=0;controls_nhomalt_fin_female=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_female=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_female=0;controls_nhomalt_oth_male=0;controls_nhomalt_raw=0;controls_nhomalt_sas=0;controls_nhomalt_sas_female=0;controls_nhomalt_sas_male=0;dp_hist_all_bin_freq=692|948|2668|7622|15099|15313|13976|12695|9752|6973|4577|3815|3535|3604|3797|3983|4230|4251|4217|4789;dp_hist_all_n_larger=37795;dp_hist_alt_bin_freq=0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|0;dp_hist_alt_n_larger=1;faf95=1.33000e-06;faf95_afr=0.00000e+00;faf95_amr=1.00000e-06;faf95_eas=0.00000e+00;faf95_nfe=0.00000e+00;faf95_sas=0.00000e+00;faf99=5.00000e-07;faf99_afr=0.00000e+00;faf99_amr=1.00000e-06;faf99_eas=0.00000e+00;faf99_nfe=0.00000e+00;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=169|242|214|432|610|523|1237|2065|1457|3793|4726|3000|8154|4325|5138|4621|6898|1900|5997|108557;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|3;n_alt_alleles=3;nhomalt=0;nhomalt_afr=0;nhomalt_afr_female=0;nhomalt_afr_male=0;nhomalt_amr=0;nhomalt_amr_female=0;nhomalt_amr_male=0;nhomalt_asj=0;nhomalt_asj_female=0;nhomalt_asj_male=0;nhomalt_eas=0;nhomalt_eas_female=0;nhomalt_eas_jpn=0;nhomalt_eas_kor=0;nhomalt_eas_male=0;nhomalt_eas_oea=0;nhomalt_female=0;nhomalt_fin=0;nhomalt_fin_female=0;nhomalt_fin_male=0;nhomalt_male=0;nhomalt_nfe=0;nhomalt_nfe_bgr=0;nhomalt_nfe_est=0;nhomalt_nfe_female=0;nhomalt_nfe_male=0;nhomalt_nfe_nwe=0;nhomalt_nfe_onf=0;nhomalt_nfe_seu=0;nhomalt_nfe_swe=0;nhomalt_oth=0;nhomalt_oth_female=0;nhomalt_oth_male=0;nhomalt_popmax=0;nhomalt_raw=0;nhomalt_sas=0;nhomalt_sas_female=0;nhomalt_sas_male=0;non_cancer_AC=2;non_cancer_AC_afr=0;non_cancer_AC_afr_female=0;non_cancer_AC_afr_male=0;non_cancer_AC_amr=1;non_cancer_AC_amr_female=1;non_cancer_AC_amr_male=0;non_cancer_AC_asj=0;non_cancer_AC_asj_female=0;non_cancer_AC_asj_male=0;non_cancer_AC_eas=0;non_cancer_AC_eas_female=0;non_cancer_AC_eas_jpn=0;non_cancer_AC_eas_kor=0;non_cancer_AC_eas_male=0;non_cancer_AC_eas_oea=0;non_cancer_AC_female=1;non_cancer_AC_fin=0;non_cancer_AC_fin_female=0;non_cancer_AC_fin_male=0;non_cancer_AC_male=1;non_cancer_AC_nfe=1;non_cancer_AC_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AC_nfe_female=0;non_cancer_AC_nfe_male=1;non_cancer_AC_nfe_nwe=0;non_cancer_AC_nfe_onf=0;non_cancer_AC_nfe_seu=1;non_cancer_AC_nfe_swe=0;non_cancer_AC_oth=0;non_cancer_AC_oth_female=0;non_cancer_AC_oth_male=0;non_cancer_AC_popmax=1;non_cancer_AC_raw=2;non_cancer_AC_sas=0;non_cancer_AC_sas_female=0;non_cancer_AC_sas_male=0;non_cancer_AF=8.50391e-06;non_cancer_AF_afr=0.00000e+00;non_cancer_AF_afr_female=0.00000e+00;non_cancer_AF_afr_male=0.00000e+00;non_cancer_AF_amr=2.93152e-05;non_cancer_AF_amr_female=5.00150e-05;non_cancer_AF_amr_male=0.00000e+00;non_cancer_AF_asj=0.00000e+00;non_cancer_AF_asj_female=0.00000e+00;non_cancer_AF_asj_male=0.00000e+00;non_cancer_AF_eas=0.00000e+00;non_cancer_AF_eas_female=0.00000e+00;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_AF_eas_kor=0.00000e+00;non_cancer_AF_eas_male=0.00000e+00;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_AF_female=9.34877e-06;non_cancer_AF_fin=0.00000e+00;non_cancer_AF_fin_female=0.00000e+00;non_cancer_AF_fin_male=0.00000e+00;non_cancer_AF_male=7.79910e-06;non_cancer_AF_nfe=9.86077e-06;non_cancer_AF_nfe_bgr=0.00000e+00;non_cancer_AF_nfe_est=0.00000e+00;non_cancer_AF_nfe_female=0.00000e+00;non_cancer_AF_nfe_male=1.73515e-05;non_cancer_AF_nfe_nwe=0.00000e+00;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_AF_nfe_seu=9.50932e-05;non_cancer_AF_nfe_swe=0.00000e+00;non_cancer_AF_oth=0.00000e+00;non_cancer_AF_oth_female=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_popmax=2.93152e-05;non_cancer_AF_raw=8.44744e-06;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_female=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=235186;non_cancer_AN_afr=14890;non_cancer_AN_afr_female=9222;non_cancer_AN_afr_male=5668;non_cancer_AN_amr=34112;non_cancer_AN_amr_female=19994;non_cancer_AN_amr_male=14118;non_cancer_AN_asj=9478;non_cancer_AN_asj_female=4554;non_cancer_AN_asj_male=4924;non_cancer_AN_eas=17684;non_cancer_AN_eas_female=8948;non_cancer_AN_eas_jpn=122;non_cancer_AN_eas_kor=3774;non_cancer_AN_eas_male=8736;non_cancer_AN_eas_oea=13788;non_cancer_AN_female=106966;non_cancer_AN_fin=21564;non_cancer_AN_fin_female=10326;non_cancer_AN_fin_male=11238;non_cancer_AN_male=128220;non_cancer_AN_nfe=101412;non_cancer_AN_nfe_bgr=2524;non_cancer_AN_nfe_est=156;non_cancer_AN_nfe_female=43780;non_cancer_AN_nfe_male=57632;non_cancer_AN_nfe_nwe=38662;non_cancer_AN_nfe_onf=24278;non_cancer_AN_nfe_seu=10516;non_cancer_AN_nfe_swe=25276;non_cancer_AN_oth=5572;non_cancer_AN_oth_female=2654;non_cancer_AN_oth_male=2918;non_cancer_AN_popmax=34112;non_cancer_AN_raw=236758;non_cancer_AN_sas=30474;non_cancer_AN_sas_female=7488;non_cancer_AN_sas_male=22986;non_cancer_faf95=1.41000e-06;non_cancer_faf95_afr=0.00000e+00;non_cancer_faf95_amr=1.00000e-06;non_cancer_faf95_eas=0.00000e+00;non_cancer_faf95_nfe=0.00000e+00;non_cancer_faf95_sas=0.00000e+00;non_cancer_faf99=5.30000e-07;non_cancer_faf99_afr=0.00000e+00;non_cancer_faf99_amr=1.00000e-06;non_cancer_faf99_eas=0.00000e+00;non_cancer_faf99_nfe=0.00000e+00;non_cancer_faf99_sas=0.00000e+00;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_female=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_female=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_female=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_female=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_female=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_female=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_female=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_female=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_popmax=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_female=0;non_cancer_nhomalt_sas_male=0;non_cancer_popmax=amr;non_neuro_AC=2;non_neuro_AC_afr=0;non_neuro_AC_afr_female=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=1;non_neuro_AC_amr_female=1;non_neuro_AC_amr_male=0;non_neuro_AC_asj=0;non_neuro_AC_asj_female=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=0;non_neuro_AC_eas_female=0;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=0;non_neuro_AC_eas_male=0;non_neuro_AC_eas_oea=0;non_neuro_AC_female=1;non_neuro_AC_fin=0;non_neuro_AC_fin_female=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=1;non_neuro_AC_nfe=1;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_female=0;non_neuro_AC_nfe_male=1;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=1;non_neuro_AC_nfe_swe=0;non_neuro_AC_oth=0;non_neuro_AC_oth_female=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=1;non_neuro_AC_raw=2;non_neuro_AC_sas=0;non_neuro_AC_sas_female=0;non_neuro_AC_sas_male=0;non_neuro_AF=9.64088e-06;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_female=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=3.29034e-05;non_neuro_AF_amr_female=5.50055e-05;non_neuro_AF_amr_male=0.00000e+00;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_female=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=0.00000e+00;non_neuro_AF_eas_female=0.00000e+00;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=0.00000e+00;non_neuro_AF_eas_male=0.00000e+00;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_female=1.04899e-05;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_female=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=8.91902e-06;non_neuro_AF_nfe=1.12130e-05;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_female=0.00000e+00;non_neuro_AF_nfe_male=2.01898e-05;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_AF_nfe_seu=9.15583e-05;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_female=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=3.29034e-05;non_neuro_AF_raw=9.60929e-06;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_female=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=207450;non_neuro_AN_afr=16204;non_neuro_AN_afr_female=10042;non_neuro_AN_afr_male=6162;non_neuro_AN_amr=30392;non_neuro_AN_amr_female=18180;non_neuro_AN_amr_male=12212;non_neuro_AN_asj=6162;non_neuro_AN_asj_female=3062;non_neuro_AN_asj_male=3100;non_neuro_AN_eas=13414;non_neuro_AN_eas_female=6842;non_neuro_AN_eas_jpn=150;non_neuro_AN_eas_kor=3816;non_neuro_AN_eas_male=6572;non_neuro_AN_eas_oea=9448;non_neuro_AN_female=95330;non_neuro_AN_fin=16698;non_neuro_AN_fin_female=7636;non_neuro_AN_fin_male=9062;non_neuro_AN_male=112120;non_neuro_AN_nfe=89182;non_neuro_AN_nfe_bgr=452;non_neuro_AN_nfe_est=216;non_neuro_AN_nfe_female=39652;non_neuro_AN_nfe_male=49530;non_neuro_AN_nfe_nwe=35142;non_neuro_AN_nfe_onf=27676;non_neuro_AN_nfe_seu=10922;non_neuro_AN_nfe_swe=14774;non_neuro_AN_oth=4842;non_neuro_AN_oth_female=2380;non_neuro_AN_oth_male=2462;non_neuro_AN_popmax=30392;non_neuro_AN_raw=208132;non_neuro_AN_sas=30556;non_neuro_AN_sas_female=7536;non_neuro_AN_sas_male=23020;non_neuro_faf95=1.60000e-06;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=1.00000e-06;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=1.60000e-06;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=1.00000e-06;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_female=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_female=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_female=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_female=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_female=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_female=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_female=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_female=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_female=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=amr;non_topmed_AC=2;non_topmed_AC_afr=0;non_topmed_AC_afr_female=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=1;non_topmed_AC_amr_female=1;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_female=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_female=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_female=1;non_topmed_AC_fin=0;non_topmed_AC_fin_female=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=1;non_topmed_AC_nfe=1;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_female=0;non_topmed_AC_nfe_male=1;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=1;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_female=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=2;non_topmed_AC_sas=0;non_topmed_AC_sas_female=0;non_topmed_AC_sas_male=0;non_topmed_AF=8.22734e-06;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_female=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=2.91460e-05;non_topmed_AF_amr_female=4.97463e-05;non_topmed_AF_amr_male=0.00000e+00;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_female=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_female=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_female=9.04372e-06;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_female=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=7.54614e-06;non_topmed_AF_nfe=9.06405e-06;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_female=0.00000e+00;non_topmed_AF_nfe_male=1.61166e-05;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_AF_nfe_seu=8.84017e-05;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_female=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=2.91460e-05;non_topmed_AF_raw=8.17401e-06;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_female=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=243092;non_topmed_AN_afr=12012;non_topmed_AN_afr_female=7330;non_topmed_AN_afr_male=4682;non_topmed_AN_amr=34310;non_topmed_AN_amr_female=20102;non_topmed_AN_amr_male=14208;non_topmed_AN_asj=9904;non_topmed_AN_asj_female=4812;non_topmed_AN_asj_male=5092;non_topmed_AN_eas=18382;non_topmed_AN_eas_female=9328;non_topmed_AN_eas_jpn=150;non_topmed_AN_eas_kor=3818;non_topmed_AN_eas_male=9054;non_topmed_AN_eas_oea=14414;non_topmed_AN_female=110574;non_topmed_AN_fin=21578;non_topmed_AN_fin_female=10336;non_topmed_AN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p_hist_all_n_larger=123;dp_hist_alt_bin_freq=0|0|0|0|0|1|0|0|1|1|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=4.94000e-06;faf95_afr=0.00000e+00;faf95_amr=0.00000e+00;faf95_eas=1.10000e-05;faf95_nfe=1.00000e-06;faf95_sas=0.00000e+00;faf99=4.85000e-06;faf99_afr=0.00000e+00;faf99_amr=0.00000e+00;faf99_eas=1.10000e-05;faf99_nfe=1.00000e-06;faf99_sas=0.00000e+00;gq_hist_all_bin_freq=2987|1241|240|471|698|544|1490|2225|1474|3408|4019|2244|4968|3584|2494|3464|3808|1510|3300|49171;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|2;n_alt_alleles=1;nhomalt=0;nhomalt_afr=0;nhomalt_afr_male=0;nhomalt_amr=0;nhomalt_amr_male=0;nhomalt_asj=0;nhomalt_asj_male=0;nhomalt_eas=0;nhomalt_eas_jpn=0;nhomalt_eas_kor=0;nhomalt_eas_male=0;nhomalt_eas_oea=0;nhomalt_fin=0;nhomalt_fin_male=0;nhomalt_male=0;nhomalt_nfe=0;nhomalt_nfe_bgr=0;nhomalt_nfe_est=0;nhomalt_nfe_male=0;nhomalt_nfe_nwe=0;nhomalt_nfe_onf=0;nhomalt_nfe_seu=0;nhomalt_nfe_swe=0;nhomalt_oth=0;nhomalt_oth_male=0;nhomalt_popmax=0;nhomalt_raw=0;nhomalt_sas=0;nhomalt_sas_male=0;non_cancer_AC=2;non_cancer_AC_afr=0;non_cancer_AC_afr_male=0;non_cancer_AC_amr=0;non_cancer_AC_amr_male=0;non_cancer_AC_asj=0;non_cancer_AC_asj_male=0;non_cancer_AC_eas=1;non_cancer_AC_eas_jpn=0;non_cancer_AC_eas_kor=1;non_cancer_AC_eas_male=1;non_cancer_AC_eas_oea=0;non_cancer_AC_fin=0;non_cancer_AC_fin_male=0;non_cancer_AC_male=2;non_cancer_AC_nfe=1;non_cancer_AC_nfe_bgr=0;non_cancer_AC_nfe_est=0;non_cancer_AC_nfe_male=1;non_cancer_AC_nfe_nwe=0;non_cancer_AC_nfe_onf=0;non_cancer_AC_nfe_seu=0;non_cancer_AC_nfe_swe=1;non_cancer_AC_oth=0;non_cancer_AC_oth_male=0;non_cancer_AC_popmax=1;non_cancer_AC_raw=2;non_cancer_AC_sas=0;non_cancer_AC_sas_male=0;non_cancer_AF=3.12823e-05;non_cancer_AF_afr=0.00000e+00;non_cancer_AF_afr_male=0.00000e+00;non_cancer_AF_amr=0.00000e+00;non_cancer_AF_amr_male=0.00000e+00;non_cancer_AF_asj=0.00000e+00;non_cancer_AF_asj_male=0.00000e+00;non_cancer_AF_eas=2.29779e-04;non_cancer_AF_eas_jpn=0.00000e+00;non_cancer_AF_eas_kor=1.09051e-03;non_cancer_AF_eas_male=2.29779e-04;non_cancer_AF_eas_oea=0.00000e+00;non_cancer_AF_fin=0.00000e+00;non_cancer_AF_fin_male=0.00000e+00;non_cancer_AF_male=3.12823e-05;non_cancer_AF_nfe=3.46188e-05;non_cancer_AF_nfe_bgr=0.00000e+00;non_cancer_AF_nfe_est=0.00000e+00;non_cancer_AF_nfe_male=3.46188e-05;non_cancer_AF_nfe_nwe=0.00000e+00;non_cancer_AF_nfe_onf=0.00000e+00;non_cancer_AF_nfe_seu=0.00000e+00;non_cancer_AF_nfe_swe=1.49254e-04;non_cancer_AF_oth=0.00000e+00;non_cancer_AF_oth_male=0.00000e+00;non_cancer_AF_popmax=2.29779e-04;non_cancer_AF_raw=3.09463e-05;non_cancer_AF_sas=0.00000e+00;non_cancer_AF_sas_male=0.00000e+00;non_cancer_AN=63934;non_cancer_AN_afr=2822;non_cancer_AN_afr_male=2822;non_cancer_AN_amr=7049;non_cancer_AN_amr_male=7049;non_cancer_AN_asj=2475;non_cancer_AN_asj_male=2475;non_cancer_AN_eas=4352;non_cancer_AN_eas_jpn=25;non_cancer_AN_eas_kor=917;non_cancer_AN_eas_male=4352;non_cancer_AN_eas_oea=3410;non_cancer_AN_fin=5548;non_cancer_AN_fin_male=5548;non_cancer_AN_male=63934;non_cancer_AN_nfe=28886;non_cancer_AN_nfe_bgr=628;non_cancer_AN_nfe_est=38;non_cancer_AN_nfe_male=28886;non_cancer_AN_nfe_nwe=10726;non_cancer_AN_nfe_onf=6676;non_cancer_AN_nfe_seu=4118;non_cancer_AN_nfe_swe=6700;non_cancer_AN_oth=1455;non_cancer_AN_oth_male=1455;non_cancer_AN_popmax=4352;non_cancer_AN_raw=64628;non_cancer_AN_sas=11347;non_cancer_AN_sas_male=11347;non_cancer_nhomalt=0;non_cancer_nhomalt_afr=0;non_cancer_nhomalt_afr_male=0;non_cancer_nhomalt_amr=0;non_cancer_nhomalt_amr_male=0;non_cancer_nhomalt_asj=0;non_cancer_nhomalt_asj_male=0;non_cancer_nhomalt_eas=0;non_cancer_nhomalt_eas_jpn=0;non_cancer_nhomalt_eas_kor=0;non_cancer_nhomalt_eas_male=0;non_cancer_nhomalt_eas_oea=0;non_cancer_nhomalt_fin=0;non_cancer_nhomalt_fin_male=0;non_cancer_nhomalt_male=0;non_cancer_nhomalt_nfe=0;non_cancer_nhomalt_nfe_bgr=0;non_cancer_nhomalt_nfe_est=0;non_cancer_nhomalt_nfe_male=0;non_cancer_nhomalt_nfe_nwe=0;non_cancer_nhomalt_nfe_onf=0;non_cancer_nhomalt_nfe_seu=0;non_cancer_nhomalt_nfe_swe=0;non_cancer_nhomalt_oth=0;non_cancer_nhomalt_oth_male=0;non_cancer_nhomalt_popmax=0;non_cancer_nhomalt_raw=0;non_cancer_nhomalt_sas=0;non_cancer_nhomalt_sas_male=0;non_cancer_popmax=eas;non_neuro_AC=2;non_neuro_AC_afr=0;non_neuro_AC_afr_male=0;non_neuro_AC_amr=0;non_neuro_AC_amr_male=0;non_neuro_AC_asj=0;non_neuro_AC_asj_male=0;non_neuro_AC_eas=1;non_neuro_AC_eas_jpn=0;non_neuro_AC_eas_kor=1;non_neuro_AC_eas_male=1;non_neuro_AC_eas_oea=0;non_neuro_AC_fin=0;non_neuro_AC_fin_male=0;non_neuro_AC_male=2;non_neuro_AC_nfe=1;non_neuro_AC_nfe_bgr=0;non_neuro_AC_nfe_est=0;non_neuro_AC_nfe_male=1;non_neuro_AC_nfe_nwe=0;non_neuro_AC_nfe_onf=0;non_neuro_AC_nfe_seu=0;non_neuro_AC_nfe_swe=1;non_neuro_AC_oth=0;non_neuro_AC_oth_male=0;non_neuro_AC_popmax=1;non_neuro_AC_raw=2;non_neuro_AC_sas=0;non_neuro_AC_sas_male=0;non_neuro_AF=3.59337e-05;non_neuro_AF_afr=0.00000e+00;non_neuro_AF_afr_male=0.00000e+00;non_neuro_AF_amr=0.00000e+00;non_neuro_AF_amr_male=0.00000e+00;non_neuro_AF_asj=0.00000e+00;non_neuro_AF_asj_male=0.00000e+00;non_neuro_AF_eas=3.04692e-04;non_neuro_AF_eas_jpn=0.00000e+00;non_neuro_AF_eas_kor=1.07411e-03;non_neuro_AF_eas_male=3.04692e-04;non_neuro_AF_eas_oea=0.00000e+00;non_neuro_AF_fin=0.00000e+00;non_neuro_AF_fin_male=0.00000e+00;non_neuro_AF_male=3.59337e-05;non_neuro_AF_nfe=4.06918e-05;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_male=4.06918e-05;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=0.00000e+00;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_AF_nfe_swe=2.63089e-04;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=3.04692e-04;non_neuro_AF_raw=3.55650e-05;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=55658;non_neuro_AN_afr=3062;non_neuro_AN_afr_male=3062;non_neuro_AN_amr=6091;non_neuro_AN_amr_male=6091;non_neuro_AN_asj=1553;non_neuro_AN_asj_male=1553;non_neuro_AN_eas=3282;non_neuro_AN_eas_jpn=29;non_neuro_AN_eas_kor=931;non_neuro_AN_eas_male=3282;non_neuro_AN_eas_oea=2322;non_neuro_AN_fin=4508;non_neuro_AN_fin_male=4508;non_neuro_AN_male=55658;non_neuro_AN_nfe=24575;non_neuro_AN_nfe_bgr=127;non_neuro_AN_nfe_est=39;non_neuro_AN_nfe_male=24575;non_neuro_AN_nfe_nwe=9190;non_neuro_AN_nfe_onf=7248;non_neuro_AN_nfe_seu=4170;non_neuro_AN_nfe_swe=3801;non_neuro_AN_oth=1223;non_neuro_AN_oth_male=1223;non_neuro_AN_popmax=3282;non_neuro_AN_raw=56235;non_neuro_AN_sas=11364;non_neuro_AN_sas_male=11364;non_neuro_faf95=1.15100e-05;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=2.40000e-05;non_neuro_faf95_nfe=4.00000e-06;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=1.23000e-05;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=2.40000e-05;non_neuro_faf99_nfe=4.00000e-06;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=eas;non_topmed_AC=2;non_topmed_AC_afr=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=1;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=1;non_topmed_AC_eas_male=1;non_topmed_AC_eas_oea=0;non_topmed_AC_fin=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=2;non_topmed_AC_nfe=1;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_male=1;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=0;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=1;non_topmed_AC_oth=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=2;non_topmed_AC_sas=0;non_topmed_AC_sas_male=0;non_topmed_AF=3.03035e-05;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=0.00000e+00;non_topmed_AF_amr_male=0.00000e+00;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=2.21828e-04;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=1.07411e-03;non_topmed_AF_eas_male=2.21828e-04;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=3.03035e-05;non_topmed_AF_nfe=3.22404e-05;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_male=3.22404e-05;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=0.00000e+00;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_AF_nfe_swe=1.45012e-04;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=2.21828e-04;non_topmed_AF_raw=2.99513e-05;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=65999;non_topmed_AN_afr=2332;non_topmed_AN_afr_male=2332;non_topmed_AN_amr=7094;non_topmed_AN_amr_male=7094;non_topmed_AN_asj=2558;non_topmed_AN_asj_male=2558;non_topmed_AN_eas=4508;non_topmed_AN_eas_jpn=30;non_topmed_AN_eas_kor=931;non_topmed_AN_eas_male=4508;non_topmed_AN_eas_oea=3547;non_topmed_AN_fin=5550;non_topmed_AN_fin_male=5550;non_topmed_AN_male=65999;non_topmed_AN_nfe=31017;non_topmed_AN_nfe_bgr=665;non_topmed_AN_nfe_est=44;non_topmed_AN_nfe_male=31017;non_topmed_AN_nfe_nwe=11057;non_topmed_AN_nfe_onf=8049;non_topmed_AN_nfe_seu=4306;non_topmed_AN_nfe_swe=6896;non_topmed_AN_oth=1573;non_topmed_AN_oth_male=1573;non_topmed_AN_popmax=4508;non_topmed_AN_raw=66775;non_topmed_AN_sas=11367;non_topmed_AN_sas_male=11367;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_popmax=0;non_topmed_nhomalt_raw=0;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_male=0;non_topmed_popmax=eas;nonpar;popmax=eas;rf_tp_probability=7.72452e-01;variant_type=snv;vep=C|3_prime_UTR_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000383070|protein_coding|1/1||ENST00000383070.1:c.*51C>G||762|||||rs781744002|1||-1||SNV|1|HGNC|11311|YES|||CCDS14772.1|ENSP00000372547|Q05066|Q6J4J1&A7WPU8|UPI0000135F78|1||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|upstream_gene_variant|MODIFIER|RNASEH2CP1|ENSG00000237659|Transcript|ENST00000454281|processed_pseudogene||||||||||rs781744002|1|2889|1||SNV|1|HGNC|24117|YES||||||||||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|downstream_gene_variant|MODIFIER|RNU6-1334P|ENSG00000251841|Transcript|ENST00000516032|snRNA||||||||||rs781744002|1|2085|1||SNV|1|HGNC|48297|YES||||||||||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000525526|protein_coding||||||||||rs781744002|1|70|-1||SNV|1|HGNC|11311|||||ENSP00000437575||F5H6J8|UPI0002064E1A|1||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0||||||||||||,C|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000534739|protein_coding||||||||||rs781744002|1|166|-1||SNV|1|HGNC|11311|||||ENSP00000438917||F5H3H1|UPI0002064E1B|1||||||C:0||||||||C:0|C:2.855e-05|C:0|C:3.067e-05|C:0|C:0|C:5.473e-05|C:0|||||||||||| +chrY 2786962 rs750874990 C G 729.42 PASS AC=1;AC_afr=0;AC_afr_male=0;AC_amr=0;AC_amr_male=0;AC_asj=0;AC_asj_male=0;AC_eas=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_fin=0;AC_fin_male=0;AC_male=1;AC_nfe=1;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_male=1;AC_nfe_nwe=0;AC_nfe_onf=1;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_male=0;AC_popmax=1;AC_raw=1;AC_sas=0;AC_sas_male=0;AF=1.47724e-05;AF_afr=0.00000e+00;AF_afr_male=0.00000e+00;AF_amr=0.00000e+00;AF_amr_male=0.00000e+00;AF_asj=0.00000e+00;AF_asj_male=0.00000e+00;AF_eas=0.00000e+00;AF_eas_jpn=0.00000e+00;AF_eas_kor=0.00000e+00;AF_eas_male=0.00000e+00;AF_eas_oea=0.00000e+00;AF_fin=0.00000e+00;AF_fin_male=0.00000e+00;AF_male=1.47724e-05;AF_nfe=3.15906e-05;AF_nfe_bgr=0.00000e+00;AF_nfe_est=0.00000e+00;AF_nfe_male=3.15906e-05;AF_nfe_nwe=0.00000e+00;AF_nfe_onf=1.21403e-04;AF_nfe_seu=0.00000e+00;AF_nfe_swe=0.00000e+00;AF_oth=0.00000e+00;AF_oth_male=0.00000e+00;AF_popmax=3.15906e-05;AF_raw=1.47143e-05;AF_sas=0.00000e+00;AF_sas_male=0.00000e+00;AN=67694;AN_afr=3086;AN_afr_male=3086;AN_amr=7151;AN_amr_male=7151;AN_asj=2584;AN_asj_male=2584;AN_eas=4533;AN_eas_jpn=30;AN_eas_kor=931;AN_eas_male=4533;AN_eas_oea=3572;AN_fin=5600;AN_fin_male=5600;AN_male=67694;AN_nfe=31655;AN_nfe_bgr=683;AN_nfe_est=45;AN_nfe_male=31655;AN_nfe_nwe=11310;AN_nfe_onf=8237;AN_nfe_seu=4433;AN_nfe_swe=6947;AN_oth=1597;AN_oth_male=1597;AN_popmax=31655;AN_raw=67961;AN_sas=11488;AN_sas_male=11488;BaseQRankSum=-1.51900e+00;ClippingRankSum=3.51000e-01;DP=4567008;FS=5.39900e+00;InbreedingCoeff=-9.00000e-04;MQ=5.73900e+01;MQRankSum=0.00000e+00;OriginalContig=Y;OriginalStart=2655003;QD=3.31600e+01;ReadPosRankSum=8.50000e-02;SOR=2.61000e-01;VQSLOD=6.70000e-01;VQSR_NEGATIVE_TRAIN_SITE;VQSR_culprit=FS;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=0;controls_AC_afr=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_fin=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_male=0;controls_AC_raw=0;controls_AC_sas=0;controls_AC_sas_male=0;controls_AF=0.00000e+00;controls_AF_afr=0.00000e+00;controls_AF_afr_male=0.00000e+00;controls_AF_amr=0.00000e+00;controls_AF_amr_male=0.00000e+00;controls_AF_asj=0.00000e+00;controls_AF_asj_male=0.00000e+00;controls_AF_eas=0.00000e+00;controls_AF_eas_jpn=0.00000e+00;controls_AF_eas_kor=0.00000e+00;controls_AF_eas_male=0.00000e+00;controls_AF_eas_oea=0.00000e+00;controls_AF_fin=0.00000e+00;controls_AF_fin_male=0.00000e+00;controls_AF_male=0.00000e+00;controls_AF_nfe=0.00000e+00;controls_AF_nfe_bgr=0.00000e+00;controls_AF_nfe_est=0.00000e+00;controls_AF_nfe_male=0.00000e+00;controls_AF_nfe_nwe=0.00000e+00;controls_AF_nfe_onf=0.00000e+00;controls_AF_nfe_seu=0.00000e+00;controls_AF_nfe_swe=0.00000e+00;controls_AF_oth=0.00000e+00;controls_AF_oth_male=0.00000e+00;controls_AF_raw=0.00000e+00;controls_AF_sas=0.00000e+00;controls_AF_sas_male=0.00000e+00;controls_AN=28989;controls_AN_afr=1458;controls_AN_afr_male=1458;controls_AN_amr=3439;controls_AN_amr_male=3439;controls_AN_asj=553;controls_AN_asj_male=553;controls_AN_eas=2129;controls_AN_eas_jpn=23;controls_AN_eas_kor=425;controls_AN_eas_male=2129;controls_AN_eas_oea=1681;controls_AN_fin=3457;controls_AN_fin_male=3457;controls_AN_male=28989;controls_AN_nfe=11778;controls_AN_nfe_bgr=170;controls_AN_nfe_est=19;controls_AN_nfe_male=11778;controls_AN_nfe_nwe=3902;controls_AN_nfe_onf=2488;controls_AN_nfe_seu=1910;controls_AN_nfe_swe=3289;controls_AN_oth=464;controls_AN_oth_male=464;controls_AN_raw=29059;controls_AN_sas=5711;controls_AN_sas_male=5711;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_fin=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_male=0;controls_nhomalt_raw=0;controls_nhomalt_sas=0;controls_nhomalt_sas_male=0;dp_hist_all_bin_freq=74878|733|1667|3577|7189|7551|10119|16935|12488|8921|6669|4952|3554|2133|1263|741|389|229|141|77;dp_hist_all_n_larger=125;dp_hist_alt_bin_freq=0|0|0|0|1|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=0.00000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n_male=0.00000e+00;non_neuro_AF_male=1.78282e-05;non_neuro_AF_nfe=4.03323e-05;non_neuro_AF_nfe_bgr=0.00000e+00;non_neuro_AF_nfe_est=0.00000e+00;non_neuro_AF_nfe_male=4.03323e-05;non_neuro_AF_nfe_nwe=0.00000e+00;non_neuro_AF_nfe_onf=1.36949e-04;non_neuro_AF_nfe_seu=0.00000e+00;non_neuro_AF_nfe_swe=0.00000e+00;non_neuro_AF_oth=0.00000e+00;non_neuro_AF_oth_male=0.00000e+00;non_neuro_AF_popmax=4.03323e-05;non_neuro_AF_raw=1.77819e-05;non_neuro_AF_sas=0.00000e+00;non_neuro_AF_sas_male=0.00000e+00;non_neuro_AN=56091;non_neuro_AN_afr=3075;non_neuro_AN_afr_male=3075;non_neuro_AN_amr=6121;non_neuro_AN_amr_male=6121;non_neuro_AN_asj=1561;non_neuro_AN_asj_male=1561;non_neuro_AN_eas=3287;non_neuro_AN_eas_jpn=29;non_neuro_AN_eas_kor=931;non_neuro_AN_eas_male=3287;non_neuro_AN_eas_oea=2327;non_neuro_AN_fin=4537;non_neuro_AN_fin_male=4537;non_neuro_AN_male=56091;non_neuro_AN_nfe=24794;non_neuro_AN_nfe_bgr=128;non_neuro_AN_nfe_est=39;non_neuro_AN_nfe_male=24794;non_neuro_AN_nfe_nwe=9231;non_neuro_AN_nfe_onf=7302;non_neuro_AN_nfe_seu=4269;non_neuro_AN_nfe_swe=3825;non_neuro_AN_oth=1231;non_neuro_AN_oth_male=1231;non_neuro_AN_popmax=24794;non_neuro_AN_raw=56237;non_neuro_AN_sas=11485;non_neuro_AN_sas_male=11485;non_neuro_faf95=0.00000e+00;non_neuro_faf95_afr=0.00000e+00;non_neuro_faf95_amr=0.00000e+00;non_neuro_faf95_eas=0.00000e+00;non_neuro_faf95_nfe=0.00000e+00;non_neuro_faf95_sas=0.00000e+00;non_neuro_faf99=0.00000e+00;non_neuro_faf99_afr=0.00000e+00;non_neuro_faf99_amr=0.00000e+00;non_neuro_faf99_eas=0.00000e+00;non_neuro_faf99_nfe=0.00000e+00;non_neuro_faf99_sas=0.00000e+00;non_neuro_nhomalt=0;non_neuro_nhomalt_afr=0;non_neuro_nhomalt_afr_male=0;non_neuro_nhomalt_amr=0;non_neuro_nhomalt_amr_male=0;non_neuro_nhomalt_asj=0;non_neuro_nhomalt_asj_male=0;non_neuro_nhomalt_eas=0;non_neuro_nhomalt_eas_jpn=0;non_neuro_nhomalt_eas_kor=0;non_neuro_nhomalt_eas_male=0;non_neuro_nhomalt_eas_oea=0;non_neuro_nhomalt_fin=0;non_neuro_nhomalt_fin_male=0;non_neuro_nhomalt_male=0;non_neuro_nhomalt_nfe=0;non_neuro_nhomalt_nfe_bgr=0;non_neuro_nhomalt_nfe_est=0;non_neuro_nhomalt_nfe_male=0;non_neuro_nhomalt_nfe_nwe=0;non_neuro_nhomalt_nfe_onf=0;non_neuro_nhomalt_nfe_seu=0;non_neuro_nhomalt_nfe_swe=0;non_neuro_nhomalt_oth=0;non_neuro_nhomalt_oth_male=0;non_neuro_nhomalt_popmax=0;non_neuro_nhomalt_raw=0;non_neuro_nhomalt_sas=0;non_neuro_nhomalt_sas_male=0;non_neuro_popmax=nfe;non_topmed_AC=1;non_topmed_AC_afr=0;non_topmed_AC_afr_male=0;non_topmed_AC_amr=0;non_topmed_AC_amr_male=0;non_topmed_AC_asj=0;non_topmed_AC_asj_male=0;non_topmed_AC_eas=0;non_topmed_AC_eas_jpn=0;non_topmed_AC_eas_kor=0;non_topmed_AC_eas_male=0;non_topmed_AC_eas_oea=0;non_topmed_AC_fin=0;non_topmed_AC_fin_male=0;non_topmed_AC_male=1;non_topmed_AC_nfe=1;non_topmed_AC_nfe_bgr=0;non_topmed_AC_nfe_est=0;non_topmed_AC_nfe_male=1;non_topmed_AC_nfe_nwe=0;non_topmed_AC_nfe_onf=1;non_topmed_AC_nfe_seu=0;non_topmed_AC_nfe_swe=0;non_topmed_AC_oth=0;non_topmed_AC_oth_male=0;non_topmed_AC_popmax=1;non_topmed_AC_raw=1;non_topmed_AC_sas=0;non_topmed_AC_sas_male=0;non_topmed_AF=1.50349e-05;non_topmed_AF_afr=0.00000e+00;non_topmed_AF_afr_male=0.00000e+00;non_topmed_AF_amr=0.00000e+00;non_topmed_AF_amr_male=0.00000e+00;non_topmed_AF_asj=0.00000e+00;non_topmed_AF_asj_male=0.00000e+00;non_topmed_AF_eas=0.00000e+00;non_topmed_AF_eas_jpn=0.00000e+00;non_topmed_AF_eas_kor=0.00000e+00;non_topmed_AF_eas_male=0.00000e+00;non_topmed_AF_eas_oea=0.00000e+00;non_topmed_AF_fin=0.00000e+00;non_topmed_AF_fin_male=0.00000e+00;non_topmed_AF_male=1.50349e-05;non_topmed_AF_nfe=3.19662e-05;non_topmed_AF_nfe_bgr=0.00000e+00;non_topmed_AF_nfe_est=0.00000e+00;non_topmed_AF_nfe_male=3.19662e-05;non_topmed_AF_nfe_nwe=0.00000e+00;non_topmed_AF_nfe_onf=1.23320e-04;non_topmed_AF_nfe_seu=0.00000e+00;non_topmed_AF_nfe_swe=0.00000e+00;non_topmed_AF_oth=0.00000e+00;non_topmed_AF_oth_male=0.00000e+00;non_topmed_AF_popmax=3.19662e-05;non_topmed_AF_raw=1.49752e-05;non_topmed_AF_sas=0.00000e+00;non_topmed_AF_sas_male=0.00000e+00;non_topmed_AN=66512;non_topmed_AN_afr=2338;non_topmed_AN_afr_male=2338;non_topmed_AN_amr=7122;non_topmed_AN_amr_male=7122;non_topmed_AN_asj=2566;non_topmed_AN_asj_male=2566;non_topmed_AN_eas=4531;non_topmed_AN_eas_jpn=30;non_topmed_AN_eas_kor=931;non_topmed_AN_eas_male=4531;non_topmed_AN_eas_oea=3570;non_topmed_AN_fin=5600;non_topmed_AN_fin_male=5600;non_topmed_AN_male=66512;non_topmed_AN_nfe=31283;non_topmed_AN_nfe_bgr=681;non_topmed_AN_nfe_est=44;non_topmed_AN_nfe_male=31283;non_topmed_AN_nfe_nwe=11103;non_topmed_AN_nfe_onf=8109;non_topmed_AN_nfe_seu=4405;non_topmed_AN_nfe_swe=6941;non_topmed_AN_oth=1584;non_topmed_AN_oth_male=1584;non_topmed_AN_popmax=31283;non_topmed_AN_raw=66777;non_topmed_AN_sas=11488;non_topmed_AN_sas_male=11488;non_topmed_nhomalt=0;non_topmed_nhomalt_afr=0;non_topmed_nhomalt_afr_male=0;non_topmed_nhomalt_amr=0;non_topmed_nhomalt_amr_male=0;non_topmed_nhomalt_asj=0;non_topmed_nhomalt_asj_male=0;non_topmed_nhomalt_eas=0;non_topmed_nhomalt_eas_jpn=0;non_topmed_nhomalt_eas_kor=0;non_topmed_nhomalt_eas_male=0;non_topmed_nhomalt_eas_oea=0;non_topmed_nhomalt_fin=0;non_topmed_nhomalt_fin_male=0;non_topmed_nhomalt_male=0;non_topmed_nhomalt_nfe=0;non_topmed_nhomalt_nfe_bgr=0;non_topmed_nhomalt_nfe_est=0;non_topmed_nhomalt_nfe_male=0;non_topmed_nhomalt_nfe_nwe=0;non_topmed_nhomalt_nfe_onf=0;non_topmed_nhomalt_nfe_seu=0;non_topmed_nhomalt_nfe_swe=0;non_topmed_nhomalt_oth=0;non_topmed_nhomalt_oth_male=0;non_topmed_nhomalt_popmax=0;non_topmed_nhomalt_raw=0;non_topmed_nhomalt_sas=0;non_topmed_nhomalt_sas_male=0;non_topmed_popmax=nfe;nonpar;popmax=nfe;rf_tp_probability=5.81201e-01;variant_type=snv;vep=G|3_prime_UTR_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000383070|protein_coding|1/1||ENST00000383070.1:c.*27G>C||738|||||rs750874990|1||-1||SNV|1|HGNC|11311|YES|||CCDS14772.1|ENSP00000372547|Q05066|Q6J4J1&A7WPU8|UPI0000135F78|1||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|upstream_gene_variant|MODIFIER|RNASEH2CP1|ENSG00000237659|Transcript|ENST00000454281|processed_pseudogene||||||||||rs750874990|1|2865|1||SNV|1|HGNC|24117|YES||||||||||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|downstream_gene_variant|MODIFIER|RNU6-1334P|ENSG00000251841|Transcript|ENST00000516032|snRNA||||||||||rs750874990|1|2109|1||SNV|1|HGNC|48297|YES||||||||||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000525526|protein_coding||||||||||rs750874990|1|46|-1||SNV|1|HGNC|11311|||||ENSP00000437575||F5H6J8|UPI0002064E1A|1||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0||||||||||||,G|downstream_gene_variant|MODIFIER|SRY|ENSG00000184895|Transcript|ENST00000534739|protein_coding||||||||||rs750874990|1|142|-1||SNV|1|HGNC|11311|||||ENSP00000438917||F5H3H1|UPI0002064E1B|1||||||G:0||||||||G:0|G:2.855e-05|G:0|G:3.057e-05|G:0|G:0|G:5.45e-05|G:0|||||||||||| +chrY 2786968 rs1327055451 A G 2172.34 PASS AC=1;AC_afr=0;AC_afr_male=0;AC_amr=0;AC_amr_male=0;AC_asj=0;AC_asj_male=0;AC_eas=0;AC_eas_jpn=0;AC_eas_kor=0;AC_eas_male=0;AC_eas_oea=0;AC_fin=0;AC_fin_male=0;AC_male=1;AC_nfe=1;AC_nfe_bgr=0;AC_nfe_est=0;AC_nfe_male=1;AC_nfe_nwe=0;AC_nfe_onf=1;AC_nfe_seu=0;AC_nfe_swe=0;AC_oth=0;AC_oth_male=0;AC_popmax=1;AC_raw=1;AC_sas=0;AC_sas_male=0;AF=1.47647e-05;AF_afr=0.00000e+00;AF_afr_male=0.00000e+00;AF_amr=0.00000e+00;AF_amr_male=0.00000e+00;AF_asj=0.00000e+00;AF_asj_male=0.00000e+00;AF_eas=0.00000e+00;AF_eas_jpn=0.00000e+00;AF_eas_kor=0.00000e+00;AF_eas_male=0.00000e+00;AF_eas_oea=0.00000e+00;AF_fin=0.00000e+00;AF_fin_male=0.00000e+00;AF_male=1.47647e-05;AF_nfe=3.15726e-05;AF_nfe_bgr=0.00000e+00;AF_nfe_est=0.00000e+00;AF_nfe_male=3.15726e-05;AF_nfe_nwe=0.00000e+00;AF_nfe_onf=1.21359e-04;AF_nfe_seu=0.00000e+00;AF_nfe_swe=0.00000e+00;AF_oth=0.00000e+00;AF_oth_male=0.00000e+00;AF_popmax=3.15726e-05;AF_raw=1.47143e-05;AF_sas=0.00000e+00;AF_sas_male=0.00000e+00;AN=67729;AN_afr=3087;AN_afr_male=3087;AN_amr=7153;AN_amr_male=7153;AN_asj=2585;AN_asj_male=2585;AN_eas=4533;AN_eas_jpn=30;AN_eas_kor=931;AN_eas_male=4533;AN_eas_oea=3572;AN_fin=5611;AN_fin_male=5611;AN_male=67729;AN_nfe=31673;AN_nfe_bgr=683;AN_nfe_est=45;AN_nfe_male=31673;AN_nfe_nwe=11318;AN_nfe_onf=8240;AN_nfe_seu=4431;AN_nfe_swe=6956;AN_oth=1598;AN_oth_male=1598;AN_popmax=31673;AN_raw=67961;AN_sas=11489;AN_sas_male=11489;DP=4609797;FS=0.00000e+00;InbreedingCoeff=-1.30000e-03;MQ=5.92400e+01;OriginalContig=Y;OriginalStart=2655009;QD=3.29100e+01;SOR=4.34300e+00;VQSLOD=-7.46500e+00;VQSR_culprit=SOR;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_larger=0;age_hist_het_n_smaller=0;age_hist_hom_bin_freq=0|0|0|0|1|0|0|0|0|0;age_hist_hom_n_larger=0;age_hist_hom_n_smaller=0;allele_type=snv;controls_AC=0;controls_AC_afr=0;controls_AC_afr_male=0;controls_AC_amr=0;controls_AC_amr_male=0;controls_AC_asj=0;controls_AC_asj_male=0;controls_AC_eas=0;controls_AC_eas_jpn=0;controls_AC_eas_kor=0;controls_AC_eas_male=0;controls_AC_eas_oea=0;controls_AC_fin=0;controls_AC_fin_male=0;controls_AC_male=0;controls_AC_nfe=0;controls_AC_nfe_bgr=0;controls_AC_nfe_est=0;controls_AC_nfe_male=0;controls_AC_nfe_nwe=0;controls_AC_nfe_onf=0;controls_AC_nfe_seu=0;controls_AC_nfe_swe=0;controls_AC_oth=0;controls_AC_oth_male=0;controls_AC_raw=0;controls_AC_sas=0;controls_AC_sas_male=0;controls_AF=0.00000e+00;controls_AF_afr=0.00000e+00;controls_AF_afr_male=0.00000e+00;controls_AF_amr=0.00000e+00;controls_AF_amr_male=0.00000e+00;controls_AF_asj=0.00000e+00;controls_AF_asj_male=0.00000e+00;controls_AF_eas=0.00000e+00;controls_AF_eas_jpn=0.00000e+00;controls_AF_eas_kor=0.00000e+00;controls_AF_eas_male=0.00000e+00;controls_AF_eas_oea=0.00000e+00;controls_AF_fin=0.00000e+00;controls_AF_fin_male=0.00000e+00;controls_AF_male=0.00000e+00;controls_AF_nfe=0.00000e+00;controls_AF_nfe_bgr=0.00000e+00;controls_AF_nfe_est=0.00000e+00;controls_AF_nfe_male=0.00000e+00;controls_AF_nfe_nwe=0.00000e+00;controls_AF_nfe_onf=0.00000e+00;controls_AF_nfe_seu=0.00000e+00;controls_AF_nfe_swe=0.00000e+00;controls_AF_oth=0.00000e+00;controls_AF_oth_male=0.00000e+00;controls_AF_raw=0.00000e+00;controls_AF_sas=0.00000e+00;controls_AF_sas_male=0.00000e+00;controls_AN=29000;controls_AN_afr=1459;controls_AN_afr_male=1459;controls_AN_amr=3439;controls_AN_amr_male=3439;controls_AN_asj=553;controls_AN_asj_male=553;controls_AN_eas=2129;controls_AN_eas_jpn=23;controls_AN_eas_kor=425;controls_AN_eas_male=2129;controls_AN_eas_oea=1681;controls_AN_fin=3457;controls_AN_fin_male=3457;controls_AN_male=29000;controls_AN_nfe=11784;controls_AN_nfe_bgr=170;controls_AN_nfe_est=19;controls_AN_nfe_male=11784;controls_AN_nfe_nwe=3904;controls_AN_nfe_onf=2488;controls_AN_nfe_seu=1910;controls_AN_nfe_swe=3293;controls_AN_oth=463;controls_AN_oth_male=463;controls_AN_raw=29059;controls_AN_sas=5716;controls_AN_sas_male=5716;controls_nhomalt=0;controls_nhomalt_afr=0;controls_nhomalt_afr_male=0;controls_nhomalt_amr=0;controls_nhomalt_amr_male=0;controls_nhomalt_asj=0;controls_nhomalt_asj_male=0;controls_nhomalt_eas=0;controls_nhomalt_eas_jpn=0;controls_nhomalt_eas_kor=0;controls_nhomalt_eas_male=0;controls_nhomalt_eas_oea=0;controls_nhomalt_fin=0;controls_nhomalt_fin_male=0;controls_nhomalt_male=0;controls_nhomalt_nfe=0;controls_nhomalt_nfe_bgr=0;controls_nhomalt_nfe_est=0;controls_nhomalt_nfe_male=0;controls_nhomalt_nfe_nwe=0;controls_nhomalt_nfe_onf=0;controls_nhomalt_nfe_seu=0;controls_nhomalt_nfe_swe=0;controls_nhomalt_oth=0;controls_nhomalt_oth_male=0;controls_nhomalt_raw=0;controls_nhomalt_sas=0;controls_nhomalt_sas_male=0;dp_hist_all_bin_freq=74816|719|1349|3135|6389|6996|10303|18483|12842|8998|6687|4961|3549|2138|1262|740|390|230|142|77;dp_hist_all_n_larger=125;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|1|0|0|0|0|0|0;dp_hist_alt_n_larger=0;faf95=0.00000e+00;faf95_afr=0.00000e+00;faf95_amr=0.00000e+00;faf95_eas=0.00000e+00;faf95_nfe=1.00000e-06;faf95_sas=0.00000e+00;faf99=0.000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+chrX 10009 rs565284081 A G . AC0;AS_VQSR 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+chrX 10014 rs370048753 T G . AC0;AS_VQSR 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_amr_XY=0;AN_non_neuro_amr_XY=224;AF_non_neuro_amr_XY=0.00000;nhomalt_non_neuro_amr_XY=0;AC_controls_and_biobanks_asj_XY=0;AN_controls_and_biobanks_asj_XY=1;AF_controls_and_biobanks_asj_XY=0.00000;nhomalt_controls_and_biobanks_asj_XY=0;AC_non_v2_fin_XY=0;AN_non_v2_fin_XY=81;AF_non_v2_fin_XY=0.00000;nhomalt_non_v2_fin_XY=0;AC_non_cancer_amr_XY=0;AN_non_cancer_amr_XY=213;AF_non_cancer_amr_XY=0.00000;nhomalt_non_cancer_amr_XY=0;AC_controls_and_biobanks=0;AN_controls_and_biobanks=563;AF_controls_and_biobanks=0.00000;nhomalt_controls_and_biobanks=0;AC_controls_and_biobanks_oth=0;AN_controls_and_biobanks_oth=8;AF_controls_and_biobanks_oth=0.00000;nhomalt_controls_and_biobanks_oth=0;AC_nfe_XY=0;AN_nfe_XY=1465;AF_nfe_XY=0.00000;nhomalt_nfe_XY=0;AC_controls_and_biobanks_sas_XY=0;AN_controls_and_biobanks_sas_XY=68;AF_controls_and_biobanks_sas_XY=0.00000;nhomalt_controls_and_biobanks_sas_XY=0;AC_non_cancer_oth=0;AN_non_cancer_oth=31;AF_non_cancer_oth=0.00000;nhomalt_non_cancer_oth=0;AC_non_topmed_oth=0;AN_non_topmed_oth=18;AF_non_topmed_oth=0.00000;nhomalt_non_topmed_oth=0;AC_non_topmed_nfe_XY=0;AN_non_topmed_nfe_XY=489;AF_non_topmed_nfe_XY=0.00000;nhomalt_non_topmed_nfe_XY=0;AC_non_v2_nfe=0;AN_non_v2_nfe=1117;AF_non_v2_nfe=0.00000;nhomalt_non_v2_nfe=0;AC_controls_and_biobanks_nfe=0;AN_controls_and_biobanks_nfe=177;AF_controls_and_biobanks_nfe=0.00000;nhomalt_controls_and_biobanks_nfe=0;AC_controls_and_biobanks_oth_XY=0;AN_controls_and_biobanks_oth_XY=8;AF_controls_and_biobanks_oth_XY=0.00000;nhomalt_controls_and_biobanks_oth_XY=0;AC_controls_and_biobanks_fin_XY=0;AN_controls_and_biobanks_fin_XY=44;AF_controls_and_biobanks_fin_XY=0.00000;nhomalt_controls_and_biobanks_fin_XY=0;AC_non_cancer_asj=0;AN_non_cancer_asj=82;AF_non_cancer_asj=0.00000;nhomalt_non_cancer_asj=0;AC_non_neuro_amr=0;AN_non_neuro_amr=224;AF_non_neuro_amr=0.00000;nhomalt_non_neuro_amr=0;AC_non_v2_ami_XY=0;AN_non_v2_ami_XY=21;AF_non_v2_ami_XY=0.00000;nhomalt_non_v2_ami_XY=0;AC_non_neuro_raw=0;AN_non_neuro_raw=24032;AF_non_neuro_raw=0.00000;nhomalt_non_neuro_raw=0;AC_non_neuro_afr=0;AN_non_neuro_afr=471;AF_non_neuro_afr=0.00000;nhomalt_non_neuro_afr=0;AC_non_topmed_ami_XY=0;AN_non_topmed_ami_XY=3;AF_non_topmed_ami_XY=0.00000;nhomalt_non_topmed_ami_XY=0;AC_non_neuro_oth_XY=0;AN_non_neuro_oth_XY=36;AF_non_neuro_oth_XY=0.00000;nhomalt_non_neuro_oth_XY=0;AC_non_cancer_afr_XY=0;AN_non_cancer_afr_XY=561;AF_non_cancer_afr_XY=0.00000;nhomalt_non_cancer_afr_XY=0;AC_non_cancer_fin=0;AN_non_cancer_fin=102;AF_non_cancer_fin=0.00000;nhomalt_non_cancer_fin=0;AC_controls_and_biobanks_asj=0;AN_controls_and_biobanks_asj=1;AF_controls_and_biobanks_asj=0.00000;nhomalt_controls_and_biobanks_asj=0;AC_non_topmed_oth_XY=0;AN_non_topmed_oth_XY=18;AF_non_topmed_oth_XY=0.00000;nhomalt_non_topmed_oth_XY=0;AC_non_neuro_XY=0;AN_non_neuro_XY=2534;AF_non_neuro_XY=0.00000;nhomalt_non_neuro_XY=0;AC_nfe=0;AN_nfe=1465;AF_nfe=0.00000;nhomalt_nfe=0;faf95_amr_XY=0.00000;faf99_amr_XY=0.00000;faf95_sas_XY=0.00000;faf99_sas_XY=0.00000;faf95_sas=0.00000;faf99_sas=0.00000;faf95_XY=0.00000;faf99_XY=0.00000;faf95_eas=0.00000;faf99_eas=0.00000;faf95_amr=0.00000;faf99_amr=0.00000;faf95_afr=0.00000;faf99_afr=0.00000;faf95_eas_XY=0.00000;faf99_eas_XY=0.00000;faf95=0.00000;faf99=0.00000;faf95_afr_XY=0.00000;faf99_afr_XY=0.00000;faf95_nfe_XY=0.00000;faf99_nfe_XY=0.00000;faf95_nfe=0.00000;faf99_nfe=0.00000;age_hist_het_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_het_n_smaller=0;age_hist_het_n_larger=0;age_hist_hom_bin_freq=0|0|0|0|0|0|0|0|0|0;age_hist_hom_n_smaller=0;age_hist_hom_n_larger=0;MQ=51.3214;QD=34.6667;VarDP=3;QUALapprox=104;AS_MQ=51.3214;AS_QD=34.6667;AS_SOR=1.17865;InbreedingCoeff=-1.77622e-05;AS_SB_TABLE=0,0|2,1;AS_VQSLOD=-1.54310;AS_culprit=AS_QD;NEGATIVE_TRAIN_SITE;allele_type=snv;n_alt_alleles=1;variant_type=snv;nonpar;gq_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;gq_hist_all_bin_freq=0|0|0|0|2435|197|76|6|2|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_alt_n_larger=0;dp_hist_all_bin_freq=0|0|2080|581|42|12|1|0|0|0|0|0|0|0|0|0|0|0|0|0;dp_hist_all_n_smaller=0;dp_hist_all_n_larger=0;ab_hist_alt_bin_freq=0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0|0;cadd_raw_score=0.189252;cadd_phred=3.00200;vep=T|upstream_gene_variant|MODIFIER|RNU6-1334P|ENSG00000251841|Transcript|ENST00000516032|snRNA||||||||||1|3260|1|SNV||HGNC|HGNC:48297|YES||||||||||||||||||||,T|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000674986|lncRNA||3/7|ENST00000674986.1:n.106+6750C>T|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,T|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675255|lncRNA||3/4|ENST00000675255.1:n.106+6750C>T|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,T|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675396|lncRNA||3/3|ENST00000675396.1:n.319+6750C>T|||||||1||1|SNV||HGNC|HGNC:34022|YES||||||||||||||||||||,T|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675500|lncRNA||3/3|ENST00000675500.1:n.107-5506C>T|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,T|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675941|lncRNA||3/6|ENST00000675941.1:n.106+6750C>T|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,T|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000676270|lncRNA||3/4|ENST00000676270.1:n.107-5506C>T|||||||1||1|SNV||HGNC|HGNC:34022||||||||||||||||||||| +chrY 2781499 . C A . AC0 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_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675396|lncRNA||3/3|ENST00000675396.1:n.319+6760C>A|||||||1||1|SNV||HGNC|HGNC:34022|YES||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675500|lncRNA||3/3|ENST00000675500.1:n.107-5496C>A|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675941|lncRNA||3/6|ENST00000675941.1:n.106+6760C>A|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,A|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000676270|lncRNA||3/4|ENST00000676270.1:n.107-5496C>A|||||||1||1|SNV||HGNC|HGNC:34022||||||||||||||||||||| +chrY 2781511 . C G . AC0 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ER|XGY2|ENSG00000288621|Transcript|ENST00000675396|lncRNA||3/3|ENST00000675396.1:n.319+6772C>G|||||||1||1|SNV||HGNC|HGNC:34022|YES||||||||||||||||||||,G|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675500|lncRNA||3/3|ENST00000675500.1:n.107-5484C>G|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,G|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000675941|lncRNA||3/6|ENST00000675941.1:n.106+6772C>G|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||,G|intron_variant&non_coding_transcript_variant|MODIFIER|XGY2|ENSG00000288621|Transcript|ENST00000676270|lncRNA||3/4|ENST00000676270.1:n.107-5484C>G|||||||1||1|SNV||HGNC|HGNC:34022|||||||||||||||||||||