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[Feature] add ARTIC V5 and V5.1 #242

Merged
merged 12 commits into from
Feb 1, 2023
Merged

[Feature] add ARTIC V5 and V5.1 #242

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7580ea3
Add new V5 ARTIC primer BED
MarieLataretu Sep 21, 2022
575087a
added v5 fai
MarieLataretu Oct 5, 2022
2cb6efb
added V5
MarieLataretu Oct 5, 2022
7602288
unify reference for V5
MarieLataretu Oct 6, 2022
33f4257
added V5.1
MarieLataretu Oct 11, 2022
99b13df
Merge branch 'master' into MarieLataretu/issue238
MarieLataretu Oct 20, 2022
2436a0c
added V5.1 to seqrs
MarieLataretu Nov 17, 2022
977e8d4
Merge branch 'master' into MarieLataretu/issue238
MarieLataretu Jan 19, 2023
5377f03
Added new V5.3.2_400 ARTIC primer BED #238
MarieLataretu Jan 19, 2023
a554a82
added V5.3.2_400 to seqrs
MarieLataretu Jan 19, 2023
8cef270
bumped predefined LCS table to 2023-01-26
MarieLataretu Jan 31, 2023
ac735df
Merge branch 'bump-lcs' into MarieLataretu/issue238
MarieLataretu Feb 1, 2023
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1 change: 1 addition & 0 deletions data/external_primer_schemes/nCoV-2019/V5.1/README.md
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https://github.com/quick-lab/nCOV19/blob/30c18f6e5dcae613560044a11374387f6da886a8/v5.1/nCOV19_400.primer.bed
207 changes: 207 additions & 0 deletions data/external_primer_schemes/nCoV-2019/V5.1/nCoV-2019.primer.bed
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MN908947.3 23 48 SARS-CoV-2_1_LEFT 1 + GTAACAAACCAACCAACTTTCGATC
MN908947.3 398 423 SARS-CoV-2_1_RIGHT 1 - AAGCCACAAGTGCCATCTTTAAGAT
MN908947.3 344 366 SARS-CoV-2_2_LEFT 2 + TCGTACGTGGCTTTGGAGACTC
MN908947.3 707 732 SARS-CoV-2_2_RIGHT 2 - TCTTCATAAGGATCAGTGCCAAGCT
MN908947.3 664 687 SARS-CoV-2_3_LEFT 1 + CATAGTTACGGCGCCGATCTAAA
MN908947.3 1018 1047 SARS-CoV-2_3_RIGHT 1 - TTTGCCAATTTAATTTCAAAAGGTGTCTG
MN908947.3 970 995 SARS-CoV-2_4_LEFT 2 + CATGAAATTGCTTGGTACACGGAAC
MN908947.3 1340 1370 SARS-CoV-2_4_RIGHT 2 - AAATTTTAACAACAGCATTTTGGGGTAAGT
MN908947.3 1292 1320 SARS-CoV-2_5_LEFT 1 + TTTGTGGCACTGAGAATTTGACTAAAGA
MN908947.3 1660 1692 SARS-CoV-2_5_RIGHT 1 - ATAATGGCGATCTCTTCATTAAGTTTAAAGTC
MN908947.3 1609 1640 SARS-CoV-2_6_LEFT 2 + AACCTTCTTGAAATACTCCAAAAAGAGAAAG
MN908947.3 1965 1998 SARS-CoV-2_6_RIGHT 2 - AGTGAATACTGTGAAATTCCATCTAGTATTGTT
MN908947.3 1921 1945 SARS-CoV-2_7_LEFT 1 + GAAACTGCTCAAAATTCTGTGCGT
MN908947.3 2283 2316 SARS-CoV-2_7_RIGHT 1 - TTATTTACAAGCTTAAAGAATGTCTGAACACTC
MN908947.3 2229 2252 SARS-CoV-2_8_LEFT 2 + TGCTTGTGAAATTGTCGGTGGAC
MN908947.3 2603 2629 SARS-CoV-2_8_RIGHT 2 - AAGCCCGTTAATACAAACTGGTGTAC
MN908947.3 2533 2563 SARS-CoV-2_9_LEFT 1 + GTCTTGAAAACTGGTGATTTACAACCATTA
MN908947.3 2900 2933 SARS-CoV-2_9_RIGHT 1 - GTAATTCAGATACTGGTTGCAAAGTTTTTATGA
MN908947.3 2854 2880 SARS-CoV-2_10_LEFT 2 + CTCGGTACAGAAGTAAATGAGTTCGC
MN908947.3 3233 3254 SARS-CoV-2_10_RIGHT 2 - TGTCCTCACTGCCGTCTTGTT
MN908947.3 3184 3213 SARS-CoV-2_11_LEFT 1 + GAGCAAGAAGAAGATTGGTTAGATGATGA
MN908947.3 3560 3584 SARS-CoV-2_11_RIGHT 1 - CGCTTAAAACACAACTACCACCCA
MN908947.3 3510 3540 SARS-CoV-2_12_LEFT 2 + CATGCAAGTTGAATCTGATGATTACATAGC
MN908947.3 3883 3913 SARS-CoV-2_12_RIGHT 2 - AGTTATAAATGGCTTAACTTCCTCTTTAGG
MN908947.3 3791 3824 SARS-CoV-2_13_LEFT 1 + CTGTCTTTGATAAAAATCTCTATGACAAACTTG
MN908947.3 4147 4180 SARS-CoV-2_13_RIGHT 1 - CTTTTTAGTAGGTATAACCACAGCAGTTAAAAC
MN908947.3 4079 4108 SARS-CoV-2_14_LEFT 2 + GTGACATTGACATCACTTTCTTAAAGAAA
MN908947.3 4457 4488 SARS-CoV-2_14_RIGHT 2 - CCCTTATATTTACGCTGTATAGTTGAAACTA
MN908947.3 4403 4425 SARS-CoV-2_15_LEFT 1 + CACATGCAGAAGAAACACGCAA
MN908947.3 4776 4803 SARS-CoV-2_15_RIGHT 1 - TCTTTATAGGAACCAGCAAGTGAGATG
MN908947.3 4723 4756 SARS-CoV-2_16_LEFT 2 + AATGGTTATCTTACTTCTTCTTCTAAAACACCT
MN908947.3 5089 5119 SARS-CoV-2_16_RIGHT 2 - AAATGTTTTACCTTCATGTGAATTATGAGG
MN908947.3 5036 5063 SARS-CoV-2_17_LEFT 1 + GACAACAGTTTGGTCCAACTTATTTGG
MN908947.3 5398 5429 SARS-CoV-2_17_RIGHT 1 - CTGTCTTATTACAGTAGGCTAAGATAAGTGC
MN908947.3 5344 5370 SARS-CoV-2_18_LEFT 2 + GCTCTACAAGATGCTTATTACAGAGC
MN908947.3 5716 5744 SARS-CoV-2_18_RIGHT 2 - ACTCACTAGCACAAGTAAATGTACCATG
MN908947.3 5671 5696 SARS-CoV-2_19_LEFT 1 + CCTTTTGTTATGATGTCAGCACCAC
MN908947.3 6031 6062 SARS-CoV-2_19_RIGHT 1 - CACATACAAACTTAAAATTATCGAAGCTTGC
MN908947.3 5891 5923 SARS-CoV-2_20_LEFT 2 + CCATAAAACCAGTTACTTATAAATTGGATGGT
MN908947.3 6257 6288 SARS-CoV-2_20_RIGHT 2 - CAGGTATTTGGTTTATACGTGGCTTTATTAG
MN908947.3 6204 6237 SARS-CoV-2_21_LEFT 1 + GAAAGGAGCTAAATTGTTACATAAACCTATTGT
MN908947.3 6562 6595 SARS-CoV-2_21_RIGHT 1 - AGGTTTCTTAATAGTAAGACTAGAATTGTCTAC
MN908947.3 6515 6542 SARS-CoV-2_22_LEFT 2 + TAAAAATTACAGAAGAGGTTGGCCACA
MN908947.3 6882 6915 SARS-CoV-2_22_RIGHT 2 - TAATTAAATGAAGCCTCTAGACAAAATTTACCG
MN908947.3 6823 6854 SARS-CoV-2_23_LEFT 1 + AATTCTAGAATTAAAGCATCTATGCCGACTA
MN908947.3 7199 7229 SARS-CoV-2_23_RIGHT 1 - CAAAAGCAGTTAAATCCCATTTAAAAGATG
MN908947.3 7145 7179 SARS-CoV-2_24_LEFT 2 + GTTTAGATTCTTTAGACACCTATCCTTCTTTAGA
MN908947.3 7518 7545 SARS-CoV-2_24_RIGHT 2 - ACAATAGTTGTACATTCGACTCTTGTT
MN908947.3 7456 7482 SARS-CoV-2_25_LEFT 1 + GTGCATGTTGTAGACGGTTGTAATTC
MN908947.3 7819 7850 SARS-CoV-2_25_RIGHT 1 - CTCTCAGGTTGTCTAAGTTAACAAAATGAGA
MN908947.3 7768 7797 SARS-CoV-2_26_LEFT 2 + CATCTTTACTTTGATAAAGCTGGTCAAAA
MN908947.3 8136 8169 SARS-CoV-2_26_RIGHT 2 - GAAATAAAAGTAGATAAGACATTGTCTAAGGAC
MN908947.3 8085 8112 SARS-CoV-2_27_LEFT 1 + AAAACTCAAAACACTAGTTGCAACTGC
MN908947.3 8468 8498 SARS-CoV-2_27_RIGHT 1 - CACATGTCAACTTAAAAGGTAAGTTATTCT
MN908947.3 8406 8436 SARS-CoV-2_28_LEFT 2 + CGTTAAAGATTTCATGTCATTGTCTGAACA
MN908947.3 8781 8806 SARS-CoV-2_28_RIGHT 2 - ATTAGTATAACTACCACCACGCTGG
MN908947.3 8732 8761 SARS-CoV-2_29_LEFT 1 + CAGATACTTGTTTTGCTAACAAACATGCT
MN908947.3 9107 9129 SARS-CoV-2_29_RIGHT 1 - ACATAACGTGTGTCAGGGCGTA
MN908947.3 9023 9052 SARS-CoV-2_30_LEFT 2 + CAATTTTTAAAGATGCTTCTGGTAAGCCA
MN908947.3 9397 9423 SARS-CoV-2_30_RIGHT 2 - ACAATACCACCAGCTACTATAGATGC
MN908947.3 9322 9355 SARS-CoV-2_31_LEFT 1 + GGTGTAGATGCTGTAAATTTACTTACTAATATG
MN908947.3 9673 9706 SARS-CoV-2_31_RIGHT 1 - ACAAATGATATAAGCAATTGTTATCCAGAAAGG
MN908947.3 9571 9604 SARS-CoV-2_32_LEFT 2 + GGTGTTTATTCTGTTATTTACTTGTACTTGACA
MN908947.3 9949 9971 SARS-CoV-2_32_RIGHT 2 - TTGCGAGATGACAACAAGCAGC
MN908947.3 9896 9929 SARS-CoV-2_33_LEFT 1 + ATAATAAGTACAAGTATTTTAGTGGAGCAATGG
MN908947.3 10266 10295 SARS-CoV-2_33_RIGHT 1 - AATGTCCAATAACCCTGAGTTGAACATTA
MN908947.3 10215 10245 SARS-CoV-2_34_LEFT 2 + TGAAGATTTACTCATTCGTAAGTCTAATCA
MN908947.3 10587 10615 SARS-CoV-2_34_RIGHT 2 - GTCAACAAAAGGTCCATAAAAGTTACCT
MN908947.3 10527 10557 SARS-CoV-2_35_LEFT 1 + TTTTTGTTACATGCACCATATGGAATTACC
MN908947.3 10897 10927 SARS-CoV-2_35_RIGHT 1 - AAATTCATCTTCTAATAAAGCACTACCCAA
MN908947.3 10832 10865 SARS-CoV-2_36_LEFT 2 + CCGTTTTAGATATGTGTGCTTCATTAAAAGAAT
MN908947.3 11201 11232 SARS-CoV-2_36_RIGHT 2 - GGCATATAGACCATATTAAAATAAGCTACAG
MN908947.3 11152 11181 SARS-CoV-2_37_LEFT 1 + AAACATAAGCATGCATTTCTCTGTTTGTT
MN908947.3 11514 11536 SARS-CoV-2_37_RIGHT 1 - ACCTCTGGCCAAAAACATGACA
MN908947.3 11463 11494 SARS-CoV-2_38_LEFT 2 + GTGGGCTCTTATAATCTCTGTTACTTCTAAC
MN908947.3 11832 11863 SARS-CoV-2_38_RIGHT 2 - CTTTACATCTGACATTTTAGACTGTACAGTG
MN908947.3 11785 11811 SARS-CoV-2_39_LEFT 1 + AACATTAAATTGTTGGGTGTTGGTGG
MN908947.3 12161 12185 SARS-CoV-2_39_RIGHT 1 - CAGAATCACCATTAGCAACAGCCT
MN908947.3 12112 12137 SARS-CoV-2_40_LEFT 2 + TCCCTTCCATCATATGCAGCTTTTG
MN908947.3 12477 12510 SARS-CoV-2_40_RIGHT 2 - TTTTTATATGTGTTATAGTCTGGTATGACAACC
MN908947.3 12419 12444 SARS-CoV-2_41_LEFT 1 + CAAGAGATGGTTGTGTTCCCTTGAA
MN908947.3 12794 12819 SARS-CoV-2_41_RIGHT 1 - AACAGTGCAAGTACAAACCTACCTC
MN908947.3 12752 12774 SARS-CoV-2_42_LEFT 2 + GCACTGATGACAATGCGTTAGC
MN908947.3 13121 13146 SARS-CoV-2_42_RIGHT 2 - CAATTAGTGATTGGTTGTCCCCCAC
MN908947.3 13075 13099 SARS-CoV-2_43_LEFT 1 + GCTTTTGCTGTAGATGCTGCTAAA
MN908947.3 13458 13480 SARS-CoV-2_43_RIGHT 1 - CACCGCAAACCCGTTTAAAAAC
MN908947.3 13415 13435 SARS-CoV-2_44_LEFT 2 + ATCAACTCCGCGAACCCATG
MN908947.3 13787 13815 SARS-CoV-2_44_RIGHT 2 - TGCCATTGTGTATTTAGTAAGACGTTGA
MN908947.3 13738 13767 SARS-CoV-2_45_LEFT 1 + ACTTCTTTAAGTTTAGAATAGACGGTGAC
MN908947.3 14120 14144 SARS-CoV-2_45_RIGHT 1 - TCTACAACAGGAACTCCACTACCT
MN908947.3 14073 14100 SARS-CoV-2_46_LEFT 2 + CTCAATGGTAACTGGTATGATTTCGGT
MN908947.3 14427 14457 SARS-CoV-2_46_RIGHT 2 - TGGAACACCATCAACAAATATTTTTCTCAC
MN908947.3 14375 14407 SARS-CoV-2_47_LEFT 1 + CTTTAATGTTTTATTCTCTACAGTGTTCCCAC
MN908947.3 14745 14775 SARS-CoV-2_47_RIGHT 1 - ATCCTGAGCAAAGAAGAAGTGTTTTAATTC
MN908947.3 14700 14725 SARS-CoV-2_48_LEFT 2 + GACTTTGCTGTGTCTAAGGGTTTCT
MN908947.3 15065 15095 SARS-CoV-2_48_RIGHT 2 - TTCTTTGCACTAATGGCATACTTAAGATTC
MN908947.3 15016 15045 SARS-CoV-2_49_LEFT 1 + CACTTTTCGCATATACAAAACGTAATGTC
MN908947.3 15386 15416 SARS-CoV-2_49_RIGHT 1 - CACTCATTAGCTAATCTATAGAAACGGTGT
MN908947.3 15342 15366 SARS-CoV-2_50_LEFT 2 + TCACTTGTTCTTGCTCGCAAACAT
MN908947.3 15716 15742 SARS-CoV-2_50_RIGHT 2 - TATTGAAACACACAACAGCATCGTCA
MN908947.3 15659 15688 SARS-CoV-2_51_LEFT 1 + CTTTGTGAATGAGTTTTACGCATATTTGC
MN908947.3 16028 16059 SARS-CoV-2_51_RIGHT 1 - AGGATGTTTAGTAAGTGGGTAAGCATCTATA
MN908947.3 15964 15998 SARS-CoV-2_52_LEFT 2 + GTTTTGTAGATGATATCGTAAAAACAGATGGTAC
MN908947.3 16331 16364 SARS-CoV-2_52_RIGHT 2 - AAGACTAATTTATGTGATGTTGATATGACATGG
MN908947.3 16285 16311 SARS-CoV-2_53_LEFT 1 + GTGCTTGCATACGTAGACCATTCTTA
MN908947.3 16650 16679 SARS-CoV-2_53_RIGHT 1 - GACAGTTTAAATGTCTCCTCAGTAGCTTT
MN908947.3 16603 16630 SARS-CoV-2_54_LEFT 2 + CTAACACCTGTACTGAAAGACTCAAGC
MN908947.3 16985 17011 SARS-CoV-2_54_RIGHT 2 - AGATATTGAGTGTTGGGTATAAGCCA
MN908947.3 16929 16954 SARS-CoV-2_55_LEFT 1 + GTAATGCCATTAAGTGCACCTACAC
MN908947.3 17301 17329 SARS-CoV-2_55_RIGHT 1 - CAGGCAATGCATTTACAGTACAAAAGAC
MN908947.3 17182 17212 SARS-CoV-2_56_LEFT 2 + CACTATGTGAGAAGGCATTAAAATATTTGC
MN908947.3 17560 17582 SARS-CoV-2_56_RIGHT 2 - ACAATTTCAGCAGGACAACGCC
MN908947.3 17478 17507 SARS-CoV-2_57_LEFT 1 + GGCACACTAGAACCAGAATATTTCAATTC
MN908947.3 17859 17886 SARS-CoV-2_57_RIGHT 1 - AGTGGTTTGAGTGAATATGACATAGTC
MN908947.3 17813 17839 SARS-CoV-2_58_LEFT 2 + GGGACTACCAACTCAAACTGTTGATT
MN908947.3 18181 18212 SARS-CoV-2_58_RIGHT 2 - ATCATAGAGATGAGTCTTCTATAGGTCATGT
MN908947.3 18121 18153 SARS-CoV-2_59_LEFT 1 + GTGTTGACACTAAATTCAAAACTGAAGGTTTA
MN908947.3 18504 18527 SARS-CoV-2_59_RIGHT 1 - CGCACTACATTCCAAGGAAGTCC
MN908947.3 18460 18484 SARS-CoV-2_60_LEFT 2 + CGCCTGGAGATCAATTTAAACACC
MN908947.3 18835 18860 SARS-CoV-2_60_RIGHT 2 - GCATCACAACTAGCTACATGTGCAT
MN908947.3 18789 18815 SARS-CoV-2_61_LEFT 1 + GGTAACCTACAAAGCAACCATGATCT
MN908947.3 19170 19195 SARS-CoV-2_61_RIGHT 1 - TCCAAAATAGGCATACACCATCTGT
MN908947.3 19101 19134 SARS-CoV-2_62_LEFT 2 + CCTTGTAGTGACAAAGCTTATAAAATAGAAGAA
MN908947.3 19469 19495 SARS-CoV-2_62_RIGHT 2 - GTCTACAGACAGCACCACCTAAATTG
MN908947.3 19415 19449 SARS-CoV-2_63_LEFT 1 + AGTGTCAGATATAGATTATGTACCACTAAAGTCT
MN908947.3 19770 19796 SARS-CoV-2_63_RIGHT 1 - GCCCAAAGCTCAAATGCTACATTAAC
MN908947.3 19721 19750 SARS-CoV-2_64_LEFT 2 + AGTTGATGGTGTTGATGTAGAATTGTTTG
MN908947.3 20091 20121 SARS-CoV-2_64_RIGHT 2 - TAATGTGACTCCATTAAGACTAGCTTGTTT
MN908947.3 20028 20054 SARS-CoV-2_65_LEFT 1 + GCCCGTAATGGTGTTCTTATTACAGA
MN908947.3 20408 20441 SARS-CoV-2_65_RIGHT 1 - GTACTGTCCATAGGAATAAAATCTTCTAATTCA
MN908947.3 20358 20388 SARS-CoV-2_66_LEFT 2 + GGTTTACATCTACTGATTGGACTAGCTAAA
MN908947.3 20729 20758 SARS-CoV-2_66_RIGHT 2 - CACTATCACCATAATTTTGAAGGTCACAC
MN908947.3 20680 20708 SARS-CoV-2_67_LEFT 1 + GTGTTGCTATGCCTAATCTTTACAAAAT
MN908947.3 21047 21080 SARS-CoV-2_67_RIGHT 1 - TTTGTAACATTTTTAGTCTTAGGGTCGTACATA
MN908947.3 20991 21018 SARS-CoV-2_68_LEFT 2 + ATTGGTGATTGTGCAACTGTACATACA
MN908947.3 21372 21402 SARS-CoV-2_68_RIGHT 2 - ACTCATGTCAAATAAAGAATAGGAAGACAA
MN908947.3 21322 21352 SARS-CoV-2_69_LEFT 1 + ATGTCATGCATGCAAATTACATATTTTGGA
MN908947.3 21696 21722 SARS-CoV-2_69_RIGHT 1 - AGTCCTGAGTTGAATGTAAAACTGAG
MN908947.3 21579 21607 SARS-CoV-2_70_LEFT 2 + TTTATTGCCACTAGTCTCTAGTCAGTGT
MN908947.3 21927 21960 SARS-CoV-2_70_RIGHT 2 - AATTCACAGACTTTAATAACAACATTAGTAGCG
MN908947.3 21866 21894 SARS-CoV-2_71_LEFT 1 + GAGGCTGGATTTTTGGTACTACTTTAGA
MN908947.3 22238 22266 SARS-CoV-2_71_RIGHT 1 - ATGTTAATACCTATTGGCAAATCTACCA
MN908947.3 22156 22189 SARS-CoV-2_72_LEFT 2 + GGTTATTTTAAAATATATTCTAAGCACACGCCT
MN908947.3 22517 22547 SARS-CoV-2_72_RIGHT 2 - ATCTAACAATAGATTCTGTTGGTTGGACTC
MN908947.3 22466 22494 SARS-CoV-2_73_LEFT 1 + CGTTGAAATCCTTCACTGTAGAAAAAGG
MN908947.3 22839 22866 SARS-CoV-2_73_RIGHT 1 - GCTATAACGCAGCCTGTAAAATCATCT
MN908947.3 22742 22774 SARS-CoV-2_74_LEFT 2 + ATGTCTATGCAGATTCATTTGTAATTAGAGGT
MN908947.3 23119 23140 SARS-CoV-2_74_RIGHT 2 - TCCACAAACAGTTGCTGGTGC
MN908947.3 22922 22954 SARS-CoV-2_75_LEFT 1 + GATTGTTTAGGAAGTCTAATCTCAAACCTTTT
MN908947.3 23296 23324 SARS-CoV-2_75_RIGHT 1 - TAATGTCAAGAATCTCAAGTGTCTGTGG
MN908947.3 23229 23258 SARS-CoV-2_76_LEFT 2 + CAAAAAGTTTCTGCCTTTCCAACAATTTG
MN908947.3 23609 23631 SARS-CoV-2_76_RIGHT 2 - TGACTAGCTACACTACGTGCCC
MN908947.3 23563 23589 SARS-CoV-2_77_LEFT 1 + GCAGGTATATGCGCTAGTTATCAGAC
MN908947.3 23914 23944 SARS-CoV-2_77_RIGHT 1 - AATTGGTGGTGTTTTGTAAATTTGTTTGAC
MN908947.3 23823 23853 SARS-CoV-2_78_LEFT 2 + GCAATATGGCAGTTTTTGTACACAATTAAA
MN908947.3 24209 24231 SARS-CoV-2_78_RIGHT 2 - GCACCAAAGGTCCAACCAGAAG
MN908947.3 24160 24189 SARS-CoV-2_79_LEFT 1 + GATGAAATGATTGCTCAATACACTTCTGC
MN908947.3 24535 24560 SARS-CoV-2_79_RIGHT 1 - TGCCTGTGATCAACCTATCAATTTG
MN908947.3 24442 24468 SARS-CoV-2_80_LEFT 2 + ACGCTTGTTAAACAACTTAGCTCCAA
MN908947.3 24815 24839 SARS-CoV-2_80_RIGHT 2 - CTTCACGAGGAAAGTGTGCTTTTC
MN908947.3 24751 24774 SARS-CoV-2_81_LEFT 1 + CATGTGACTTATGTCCCTGCACA
MN908947.3 25120 25151 SARS-CoV-2_81_RIGHT 1 - GAGATTCATTTAAATTCTTGGCAACCTCATT
MN908947.3 25053 25082 SARS-CoV-2_82_LEFT 2 + TGATTTAGGTGACATCTCTGGCATTAATG
MN908947.3 25423 25452 SARS-CoV-2_82_RIGHT 2 - GATTTCACCTTGCTTCAAAGTTACAGTTC
MN908947.3 25372 25402 SARS-CoV-2_83_LEFT 1 + CATTACACATAAACGAACTTATGGATTTGT
MN908947.3 25744 25777 SARS-CoV-2_83_RIGHT 1 - GCCAAAGCCTCATTATTATTCTTACAAAGTTTA
MN908947.3 25696 25724 SARS-CoV-2_84_LEFT 2 + AAGCCCCTTTTCTCTATCTTTATGCTTT
MN908947.3 26059 26086 SARS-CoV-2_84_RIGHT 2 - TGAAGAAGGTAACATGTTCAACACCAG
MN908947.3 26011 26039 SARS-CoV-2_85_LEFT 1 + TCACTTCAGACTATTACCAGCTGTACTC
MN908947.3 26382 26411 SARS-CoV-2_85_RIGHT 1 - AAAGAAGGTTTTACAAGACTCACGTTAAC
MN908947.3 26339 26362 SARS-CoV-2_86_LEFT 2 + CATCCTTACTGCGCTTCGATTGT
MN908947.3 26730 26756 SARS-CoV-2_86_RIGHT 2 - ACCGGTGATCCAATTTATTCTGTAAA
MN908947.3 26639 26672 SARS-CoV-2_87_LEFT 1 + GCCAACAGGAATAGGTTTTTGTATATAATTAAG
MN908947.3 27011 27038 SARS-CoV-2_87_RIGHT 1 - TGTAGCAACAGTGATTTCTTTAGGCAG
MN908947.3 26965 26989 SARS-CoV-2_88_LEFT 2 + TCTTCGTATTGCTGGACACCATCT
MN908947.3 27342 27372 SARS-CoV-2_88_RIGHT 2 - TGGTTGCTCTTCATCTAATTGAGAATATTT
MN908947.3 27218 27251 SARS-CoV-2_89_LEFT 1 + CTTTCAGGTTACTATAGCAGAGATATTACTAAT
MN908947.3 27583 27603 SARS-CoV-2_89_RIGHT 1 - GCCGTCAGGACAAGCAAAAG
MN908947.3 27530 27558 SARS-CoV-2_90_LEFT 2 + TCATCCTCTAGCTGATAACAAATTTGCA
MN908947.3 27927 27950 SARS-CoV-2_90_RIGHT 2 - TTCTTGGTGAAATGCAGCTACAG
MN908947.3 27832 27860 SARS-CoV-2_91_LEFT 1 + TATCTTTTGGTTCTCACTTGAACTGCAA
MN908947.3 28209 28237 SARS-CoV-2_91_RIGHT 1 - CGAACGTCATGATACTCTAAAAAGTCTT
MN908947.3 28135 28166 SARS-CoV-2_92_LEFT 2 + TTCCTGTTTACCTTTTACAATTAATTGCCAG
MN908947.3 28513 28539 SARS-CoV-2_92_RIGHT 2 - CTTCGGTAGTAGCCAATTTGGTCATC
MN908947.3 28473 28493 SARS-CoV-2_93_LEFT 1 + TCGAGGACAAGGCGTTCCAA
MN908947.3 28849 28873 SARS-CoV-2_93_RIGHT 1 - GCCTGGAGTTGAATTTCTTGAACT
MN908947.3 28808 28829 SARS-CoV-2_94_LEFT 2 + GCAGTCAAGCCTCTTCTCGTT
MN908947.3 29203 29224 SARS-CoV-2_94_RIGHT 2 - CATTCCGAAGAACGCTGAAGC
MN908947.3 29159 29183 SARS-CoV-2_95_LEFT 1 + CTGATTACAAACATTGGCCGCAAA
MN908947.3 29538 29559 SARS-CoV-2_95_RIGHT 1 - ATCTGCCTTGTGTGGTCTGCA
MN908947.3 29493 29515 SARS-CoV-2_96_LEFT 2 + GCAACAATCCATGAGCAGTGCT
MN908947.3 29840 29873 SARS-CoV-2_96_RIGHT 2 - TTTGTCATTCTCCTAAGAAGCTATTAAAATCAC
MN908947.3 47 78 SARS-CoV-2_1_LEFT_alt 1 + CTCTTGTAGATCTGTTCTCTAAACGAACTTT
MN908947.3 419 447 SARS-CoV-2_1_RIGHT_alt 1 - AAAACGCCTTTTTCAACTTCTACTAAGC
MN908947.3 638 661 SARS-CoV-2_3_LEFT_alt 1 + AGAACGGTAATAAAGGAGCTGGT
MN908947.3 1574 1596 SARS-CoV-2_6_LEFT_alt 2 + GTGTTGTTGGAGAAGGTTCCGA
MN908947.3 1945 1972 SARS-CoV-2_6_RIGHT_alt 2 - TATTGTTATAGCGGCCTTCTGTAAAAC
MN908947.3 9299 9324 SARS-CoV-2_31_LEFT_alt 1 + GATCTTTACCAGGAGTTTTCTGTGG
MN908947.3 16624 16647 SARS-CoV-2_54_LEFT_alt 2 + TCAAGCTTTTTGCAGCAGAAACG
MN908947.3 17004 17033 SARS-CoV-2_54_RIGHT_alt 2 - ACATTGCTAGAAAACTCATCTGAGATATT
MN908947.3 20650 20676 SARS-CoV-2_67_LEFT_alt 1 + AATTACAATCTAGTCAAGCGTGGCAA
MN908947.3 21018 21051 SARS-CoV-2_67_RIGHT_alt 1 - CATATCACTAATAATGAGATCCCATTTATTAGC
MN908947.3 25718 25743 SARS-CoV-2_84_LEFT_alt 2 + TGCTTTAGTCTACTTCTTGCAGAGT
MN908947.3 26107 26131 SARS-CoV-2_84_RIGHT_alt 2 - GAATTTGGACATGTTCTTCAGGCT
MN908947.3 26593 26621 SARS-CoV-2_87_LEFT_alt 1 + AGGTTTCCTATTCCTTACATGGATTTGT
MN908947.3 26989 27009 SARS-CoV-2_87_RIGHT_alt 1 - CCTTGATGTCACAGCGTCCT
MN908947.3 29462 29486 SARS-CoV-2_96_LEFT_alt 2 + CTGCAGATTTGGATGATTTCTCCA
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