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##fileformat=VCFv4.1
##FILTER=<ID=PASS,Description="All filters passed">
##INFO=<ID=TEST,Number=1,Type=Integer,Description="Testing Tag">
##FORMAT=<ID=TT,Number=A,Type=Integer,Description="Testing Tag, with commas and \"escapes\" and escaped escapes combined with \\\"quotes\\\\\"">
##INFO=<ID=DP4,Number=4,Type=Integer,Description="# high-quality ref-forward bases, ref-reverse, alt-forward and alt-reverse bases">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood">
##FILTER=<ID=q10,Description="Quality below 10">
##FILTER=<ID=test,Description="Testing filter">
##contig=<ID=1,assembly=b37,length=249250621>
##contig=<ID=2,assembly=b37,length=249250621>
##contig=<ID=3,assembly=b37,length=198022430>
##contig=<ID=4,assembly=b37,length=191154276>
##test=<ID=4,IE=5>
##reference=file:///lustre/scratch105/projects/g1k/ref/main_project/human_g1k_v37.fasta
##readme=AAAAAA
##readme=BBBBBB
##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes">
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
##INFO=<ID=INDEL,Number=0,Type=Flag,Description="Indicates that the variant is an INDEL.">
##INFO=<ID=STR,Number=1,Type=String,Description="Test string type">
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A B
1 3000150 id1 C T 99 PASS AN=4;AC=2;STR=id1 GT:GQ 0/1:245 0/1:245
1 3000151 id2 C T 99 PASS AN=4;AC=2;STR=id2 GT:DP:GQ 0/1:32:245 0/1:32:245
1 3062915 idIndel GTTT G 99 PASS DP4=1,2,3,4;AN=4;AC=2;INDEL;STR=testIndel GT:GQ:DP:GL 0/1:409:35:-20,-5,-20 0/1:409:35:-20,-5,-20
1 3062915 idSNP G T,C 99 PASS TEST=5;DP4=1,2,3,4;AN=3;AC=1,1;STR=testSNP GT:TT:GQ:DP:GL 0/1:0,1:409:35:-20,-5,-20,-20,-5,-20 2:0,1:409:35:-20,-5,-20
1 3106154 id4 CAAA C 99 PASS AN=4;AC=2;STR=id4 GT:GQ:DP 0/1:245:32 0/1:245:32
1 3106154 id5 C CT 99 PASS AN=4;AC=2;STR=id5 GT:GQ:DP 0/1:245:32 0/1:245:32
1 3157410 id6 GA G 99 PASS AN=4;AC=4;STR=id6 GT:GQ:DP 1/1:21:21 1/1:21:21
1 3162006 . GAA G 60.2 PASS AN=4;AC=2 GT:GQ:DP 0/1:212:22 0/1:212:22
1 3177144 id8 G T 99 PASS AN=4;AC=2;STR=id8 GT:GQ:DP 0/0:150:30 1/1:150:30
1 3177144 id9 G . 99 PASS AN=4;AC=0;STR=id9 GT:GQ:DP 0/0:150:30 0/0:150:30
1 3184885 id10 TAAAA TA,T 99 PASS AN=4;AC=2,2;STR=id10 GT:GQ:DP 1/2:12:10 1/2:12:10
2 3199812 id11 G GTT,GT 99 PASS AN=4;AC=2,2;STR=id11 GT:GQ:DP 1/2:322:26 1/2:322:26
3 3212016 id12 CTT C,CT 99 PASS AN=4;AC=2,2;STR=id12 GT:GQ:DP 1/2:91:26 1/2:91:26
4 3258448 id13 TACACACAC T 99 PASS AN=4;AC=2;STR=id13 GT:GQ:DP 0/1:325:31 0/1:325:31
4 4000000 . T A,C 59.9 PASS AN=4;AC=2,0 GT:GQ:DP 0/1:325:31 0/1:325:31
4 4000001 . T A 59.9 PASS AN=4;AC=2 GT:GQ:DP 0/1:325:31 0/1:325:31
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