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1 ##fileformat=VCFv4.1
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2 ##fileDate=20140610
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3 ##source=Dan
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4 ##reference=file:///galaxy/data/phiX/sam_index/phiX.fa
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5 ##filter="AF > .001"
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6 ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
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7 ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
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8 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
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9 ##FORMAT=<ID=AC,Number=.,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
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10 ##FORMAT=<ID=AF,Number=.,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
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11 ##FORMAT=<ID=NC,Number=.,Type=String,Description="Nucleotide and indel counts">
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12 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT groupA groupB
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13 phiX174 1503 . A C 0 . AC=2;AF=0.0454545454545 GT:AC:AF:NC 0:0:0:A=20,C=1, 0:2:0.0833333333333:A=22,C=2,
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14 phiX174 1536 . A C 0 . AC=3;AF=0.0545454545455 GT:AC:AF:NC 0:3:0.111111111111:A=24,C=3, 0:0:0:A=28,C=1,
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15 phiX174 1541 . T G 0 . AC=2;AF=0.0363636363636 GT:AC:AF:NC 0:2:0.0740740740741:T=25,G=2, 0:0:0:T=28,
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16 phiX174 1553 . A G 0 . AC=2;AF=0.0408163265306 GT:AC:AF:NC 0:2:0.0952380952381:A=19,C=1,G=2, 0:0:0:A=28,
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17 phiX174 1566 . C G 0 . AC=2;AF=0.0307692307692 GT:AC:AF:NC 0:0:0:C=30,T=1, 0:2:0.0571428571429:C=33,G=2,
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18 phiX174 1572 . T G 0 . AC=2;AF=0.03125 GT:AC:AF:NC 0:2:0.0625:T=30,G=2, 0:0:0:T=32,
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19 phiX174 1574 . G C 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:3:0.0882352941176:C=3,G=31, 0:0:0:G=34,
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20 phiX174 1575 . A C 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:2:0.0571428571429:A=33,C=2, 0:0:0:A=33,T=1,
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21 phiX174 1577 . A C 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:0:0:A=35, 0:3:0.0909090909091:A=30,C=3,
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22 phiX174 1581 . T G 0 . AC=2;AF=0.0285714285714 GT:AC:AF:NC 0:2:0.0555555555556:C=1,T=34,G=2, 0:0:0:T=34,G=1,
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23 phiX174 1591 . A C 0 . AC=3;AF=0.037037037037 GT:AC:AF:NC 0:3:0.0789473684211:A=35,C=3, 0:0:0:A=43,C=1,
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24 phiX174 1597 . T G 0 . AC=2;AF=0.025641025641 GT:AC:AF:NC 0:2:0.0606060606061:T=31,G=2, 0:0:0:C=1,T=45,
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