Mercurial > repos > iuc > bcftools_plugin_vcf2sex

comparison test-data/norm.setref.vcf @ 0:5e036e905f69 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit ef90c4602bdb83ea7455946c9d175ea27284e643
author iuc
date Wed, 06 Jul 2016 07:07:59 -0400
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-1:000000000000 0:5e036e905f69
1 ##fileformat=VCFv4.2
2 ##FILTER=<ID=PASS,Description="All filters passed">
3 ##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL.">
4 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
5 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Phred-scaled likelihood">
6 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Depth">
7 ##contig=<ID=1,length=2147483647>
8 ##contig=<ID=2,length=2147483647>
9 ##contig=<ID=3,length=2147483647>
10 ##contig=<ID=4,length=2147483647>
11 ##contig=<ID=5,length=2147483647>
12 ##contig=<ID=20,length=2147483647>
13 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
14 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes">
15 ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
16 ##INFO=<ID=XRF,Number=R,Type=Float,Description="Test Number=AGR in INFO">
17 ##INFO=<ID=XAF,Number=A,Type=Float,Description="Test Number=AGR in INFO">
18 ##INFO=<ID=XGF,Number=G,Type=Float,Description="Test Number=AGR in INFO">
19 ##INFO=<ID=XRI,Number=R,Type=Integer,Description="Test Number=AGR in INFO">
20 ##INFO=<ID=XAI,Number=A,Type=Integer,Description="Test Number=AGR in INFO">
21 ##INFO=<ID=XGI,Number=G,Type=Integer,Description="Test Number=AGR in INFO">
22 ##INFO=<ID=XRS,Number=R,Type=String,Description="Test Number=AGR in INFO">
23 ##INFO=<ID=XAS,Number=A,Type=String,Description="Test Number=AGR in INFO">
24 ##INFO=<ID=XGS,Number=G,Type=String,Description="Test Number=AGR in INFO">
25 ##FORMAT=<ID=FRF,Number=R,Type=Float,Description="Test Number=AGR in FORMAT">
26 ##FORMAT=<ID=FAF,Number=A,Type=Float,Description="Test Number=AGR in FORMAT">
27 ##FORMAT=<ID=FGF,Number=G,Type=Float,Description="Test Number=AGR in FORMAT">
28 ##FORMAT=<ID=FRI,Number=R,Type=Integer,Description="Test Number=AGR in FORMAT">
29 ##FORMAT=<ID=FAI,Number=A,Type=Integer,Description="Test Number=AGR in FORMAT">
30 ##FORMAT=<ID=FGI,Number=G,Type=Integer,Description="Test Number=AGR in FORMAT">
31 ##FORMAT=<ID=FRS,Number=R,Type=String,Description="Test Number=AGR in FORMAT">
32 ##FORMAT=<ID=FAS,Number=A,Type=String,Description="Test Number=AGR in FORMAT">
33 ##FORMAT=<ID=FGS,Number=G,Type=String,Description="Test Number=AGR in FORMAT">
34 ##FORMAT=<ID=FSTR,Number=1,Type=String,Description="Test String in FORMAT">
35 ##INFO=<ID=ISTR,Number=1,Type=String,Description="Test String in INFO">
36 ##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the variant described in this record">
37 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT XY00001 XY00002
38 1 105 . TAACCCTAAA TAAACCCTAAA,TAA 999 PASS INDEL;AN=4;AC=2,2;DP=19 GT 1/2 1/2
39 2 101 . . c 999 PASS INDEL;AN=4;AC=4 GT:DP 1/1:1 1/1:1
40 2 105 . n <DEL> 999 PASS END=112;AN=4;AC=3 GT:DP 0/1:1 1/1:1
41 2 115 . t c 999 PASS INDEL;AN=4;AC=4 GT:DP 1/1:1 1/1:1
42 20 3 . c g 999 PASS INDEL;AN=4;AC=1 GT 0/0 0/1
43 20 3 . gact gatg 999 PASS INDEL;AN=4;AC=2 GT 1/0 1/0
44 20 10 . . . 999 PASS INDEL;AN=4;AC=1 GT 1/0 0/0
45 20 275 . g c,a,t,aaa 999 PASS INDEL;AN=2;AC=0,2,0,0 GT 2 2