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winni2k/issue_336_minimal.vcf

Created October 16, 2015 12:16
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Minimal VCF showing bug described in issue 336
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issue_336_minimal.vcf
##fileformat=VCFv4.2
##FILTER=<ID=PASS,Description="All filters passed">
##samtoolsVersion=1.2-216-gdffc67f-dirty+htslib-1.2.1-216-gd2ed7e6-dirty
##reference=file:///usr/bio-ref/GRCh38.81/GRCh38.fa
##contig=<ID=1,length=248956422>
#CHROM POS ID REF ALT QUAL FILTER
1 789241 . C G 41.4503 .
1 789262 . G A 36.0809 .
1 789280 . T C 40.0265 .
1 789334 . A T 67 .
1 789348 . T A 44.5622 .
1 789368 . A T 18.5381 .
1 789369 . C T 30.0396 .
1 789396 . A C 35.7056 .
1 789402 . G T 35.0554 .
1 789403 . T A 35.0681 .
1 789417 . T G 35.0681 .
1 789420 . T A 35.0681 .
1 789429 . A C 39.1119 .
1 789435 . C T 35.1179 .
1 789481 . G A 94 .
1 789489 . C A 89 .
1 789491 . C G 100 .
1 789568 . TATGGAATGGAATGGAATGGAATG TATGGAATGGAATGGAATG 295 .
1 789631 . G A 3.18972 .
1 789642 . T G 3.66362 .
1 789660 . C T 35.0294 .
1 789666 . T G 16.1313 .
1 789673 . A T 52 .
1 789675 . T G 20.7408 .
1 789676 . C T 26.6621 .
1 789680 . A T 21.5713 .
1 789680 . AGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGGAATGGAATG AGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGAATGGACTCGAATGGAATGGAATGGAATG 23.495 .
1 789685 . T G 6.53871 .
1 789690 . T G,C 16.2287 .
1 789691 . G T,C 21.8633 .
1 789692 . G A 31.8203 .
1 789695 . T A 7.03922 .
1 789696 . G A,T,C 64 .
1 789697 . G A 116 .
1 789700 . T A,G 27.3447 .
1 789704 . A C,T,G 12.9378 .
1 789706 . G C,A 4.49441 .
1 789707 . G C,A 6.28796 .
1 789710 . T G,A 59 .
1 789711 . G T 15.1544 .
1 789713 . A C 6.69714 .
1 789717 . G A 82 .
1 789720 . T G 26.241 .
1 789721 . G A,T 99 .
1 789727 . G A,C 5.18898 .
1 789730 . T A,C 73 .
1 789731 . G T 111 .
1 789732 . G T 24.8095 .
1 789735 . T G 61 .
1 789737 . G T,A 69 .
1 789739 . A T 48.5355 .
1 789740 . T A 29.8166 .
1 789747 . A G,C,T 187 .
1 789749 . C G 19.1565 .
1 789750 . T A,C 12.5086 .
1 789752 . C G 284 .
1 789757 . G A 7.13117 .
1 789765 . T A 191 .
1 789767 . G A 16.2222 .
1 789769 . C T 17.4827 .
1 789770 . T G,A 64 .
1 789772 . G A,C 31.6793 .
1 789775 . T A,G 125 .
1 789776 . A G 151 .
1 789777 . G C 22.9639 .
1 789781 . G A 89 .
1 789795 . A T 11.555 .
1 789816 . G A 29.3537 .
1 789957 . C G 19.4796 .
1 790009 . C T 55 .
1 790136 . A G 85 .
1 790156 . G A 19.4198 .
1 790176 . A G 86 .
1 790179 . C T 4.20807 .
1 790181 . C T 12.5149 .
1 790186 . G A 86 .
1 790189 . T A 76 .
1 790202 . G A,C 86 .
1 790206 . C A,T 18.4041 .
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