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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 1015 . A C 0 . AC=2;AF=0.0555555555556 GT:AC:AF:NC 0:0,2:0,0.2:A=8,C=2,G=1, 0:0,0:0,0:A=26,G=1,
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14 phiX174 1016 . A T 0 . AC=2;AF=0.0555555555556 GT:AC:AF:NC 0:0:0:A=10, 0:2:0.0769230769231:A=24,T=2,
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15 phiX174 1038 . A C 0 . AC=2;AF=0.046511627907 GT:AC:AF:NC 0:2:0.153846153846:A=11,C=2, 0:0:0:A=30,
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16 phiX174 1045 . T G 0 . AC=2;AF=0.0425531914894 GT:AC:AF:NC 0:0:0:T=15,G=1, 0:2:0.0625:T=30,G=2,
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17 phiX174 1048 . C A 0 . AC=2;AF=0.0434782608696 GT:AC:AF:NC 0:2:0.133333333333:A=2,C=13, 0:0:0:C=31,G=1,
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18 phiX174 1050 . A C 0 . AC=3;AF=0.0714285714286 GT:AC:AF:NC 0:0:0:A=12, 0:3:0.1:A=27,C=3,
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19 phiX174 1051 . T G 0 . AC=2;AF=0.0487804878049 GT:AC:AF:NC 0:2:0.166666666667:C=1,T=10,G=2, 0:0:0:T=29,G=1,
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20 phiX174 1054 . T G 0 . AC=2;AF=0.0454545454545 GT:AC:AF:NC 0:2:0.153846153846:T=11,G=2, 0:0:0:T=31,G=1,
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21 phiX174 1076 . G C 0 . AC=2;AF=0.0363636363636 GT:AC:AF:NC 0:2:0.105263157895:A=1,C=2,G=17, 0:0:0:G=36,
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22 phiX174 1080 . G C 0 . AC=2;AF=0.0344827586207 GT:AC:AF:NC 0:2:0.105263157895:A=1,C=2,T=1,G=17, 0:0:0:C=1,G=39,
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23 phiX174 1092 . T G 0 . AC=2;AF=0.0263157894737 GT:AC:AF:NC 0:2:0.0833333333333:C=1,T=22,G=2, 0:0:0:T=52,G=1,
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24 phiX174 1093 . T G 0 . AC=2;AF=0.025974025974 GT:AC:AF:NC 0:2:0.08:T=23,G=2, 0:0:0:T=52,
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25 phiX174 1102 . T C 0 . AC=6;AF=0.0779220779221 GT:AC:AF:NC 0:2:0.0869565217391:C=2,T=21, 0:4:0.0740740740741:C=4,T=50,
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26 phiX174 1107 . T G 0 . AC=2;AF=0.0277777777778 GT:AC:AF:NC 0:0:0:T=22,G=1, 0:2:0.04:T=48,G=2,
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27 phiX174 1110 . T C 0 . AC=2;AF=0.0277777777778 GT:AC:AF:NC 0:2:0.125:C=2,T=14, 0:0:0:C=1,T=56,G=1,
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28 phiX174 1121 . T G 0 . AC=3;AF=0.041095890411 GT:AC:AF:NC 0:0:0:T=19, 0:3:0.0555555555556:T=51,G=3,
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29 phiX174 1124 . T C 0 . AC=2;AF=0.0307692307692 GT:AC:AF:NC 0:0,2:0,0.117647058824:C=2,T=15,G=1, 0:0,0:0,0:T=48,G=1,
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30 phiX174 1125 . T G 0 . AC=3;AF=0.0454545454545 GT:AC:AF:NC 0:3:0.176470588235:T=14,G=3, 0:0:0:T=49,G=1,
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31 phiX174 1131 . T G 0 . AC=2;AF=0.025641025641 GT:AC:AF:NC 0:2:0.0952380952381:T=19,G=2, 0:0:0:T=57,
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32 phiX174 1141 . T G 0 . AC=2;AF=0.0253164556962 GT:AC:AF:NC 0:0:0:T=20,G=1, 0:2:0.0338983050847:T=57,G=2,
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33 phiX174 1145 . G C 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:2:0.0952380952381:C=2,G=19, 0:0:0:G=52,
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34 phiX174 1147 . T C 0 . AC=2;AF=0.0281690140845 GT:AC:AF:NC 0:2:0.0952380952381:C=2,T=19, 0:0:0:T=50,
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35 phiX174 1149 . T G,C 0 . AC=2,2;AF=0.027027027027,0.027027027027 GT:AC:AF:NC 0:2,2:0.1,0.1:C=2,T=16,G=2, 0:0,0:0,0:T=54,
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36 phiX174 1156 . T G 0 . AC=2;AF=0.031746031746 GT:AC:AF:NC 0:0:0:C=1,T=15, 0:2:0.0416666666667:T=46,G=2,
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37 phiX174 1159 . T C,G 0 . AC=2,2;AF=0.0298507462687,0.0298507462687 GT:AC:AF:NC 0:2,0:0.111111111111,0:C=2,T=16, 0:0,2:0,0.0408163265306:C=1,T=47,G=2,
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38 phiX174 1164 . T G 0 . AC=4;AF=0.0666666666667 GT:AC:AF:NC 0:0:0:C=1,T=16,G=1, 0:4:0.0909090909091:T=40,G=4,
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39 phiX174 1168 . T G 0 . AC=4;AF=0.0666666666667 GT:AC:AF:NC 0:2:0.0952380952381:C=1,T=19,G=2, 0:2:0.0512820512821:T=37,G=2,
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40 phiX174 1171 . T G 0 . AC=2;AF=0.0327868852459 GT:AC:AF:NC 0:2:0.0869565217391:T=21,G=2, 0:0:0:T=38,G=1,
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41 phiX174 1174 . C A 0 . AC=2;AF=0.0327868852459 GT:AC:AF:NC 0:2:0.0869565217391:A=2,C=21, 0:0:0:A=1,C=38,
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42 phiX174 1178 . G C 0 . AC=2;AF=0.0307692307692 GT:AC:AF:NC 0:2:0.0740740740741:C=2,T=1,G=25, 0:0:0:G=38,
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43 phiX174 1187 . T G 0 . AC=3;AF=0.04 GT:AC:AF:NC 0:3:0.0882352941176:C=1,T=31,G=3, 0:0:0:T=41,
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44 phiX174 1189 . T C 0 . AC=3;AF=0.0379746835443 GT:AC:AF:NC 0:3:0.0857142857143:C=3,T=32,G=1, 0:0:0:T=44,
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45 phiX174 1200 . T G 0 . AC=3;AF=0.0365853658537 GT:AC:AF:NC 0:3:0.0882352941176:T=31,G=3, 0:0:0:T=48,G=1,
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46 phiX174 1202 . T G 0 . AC=3;AF=0.0365853658537 GT:AC:AF:NC 0:0:0:T=32, 0:3:0.06:T=47,G=3,
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47 phiX174 1205 . A C 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:2:0.0588235294118:A=32,C=2, 0:0:0:A=47,C=1,G=1,
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48 phiX174 1207 . T G 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:0:0:A=1,T=34, 0:2:0.0425531914894:T=45,G=2,
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49 phiX174 1214 . G A 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:0:0:T=1,G=34, 0:2:0.0425531914894:A=2,G=45,
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50 phiX174 1216 . C A 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:0:0:C=34, 0:2:0.0425531914894:A=2,C=45,
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51 phiX174 1217 . C A 0 . AC=2;AF=0.025 GT:AC:AF:NC 0:2:0.0588235294118:A=2,C=32, 0:0:0:C=46,
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52 phiX174 1219 . T G 0 . AC=2;AF=0.025641025641 GT:AC:AF:NC 0:0:0:C=1,T=33,G=1, 0:2:0.0444444444444:T=43,G=2,
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53 phiX174 1223 . C T 0 . AC=2;AF=0.025 GT:AC:AF:NC 0:2:0.0555555555556:C=34,T=2, 0:0:0:C=44,
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54 phiX174 1227 . A C 0 . AC=2;AF=0.027027027027 GT:AC:AF:NC 0:2:0.0588235294118:A=32,C=2, 0:0:0:A=40,
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55 phiX174 1232 . T G 0 . AC=2;AF=0.0298507462687 GT:AC:AF:NC 0:0:0:T=34, 0:2:0.0606060606061:C=1,T=31,G=2,
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56 phiX174 1236 . G T 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:2:0.0606060606061:A=1,T=2,G=31, 0:0:0:G=35,
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57 phiX174 1237 . T G 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:2:0.0571428571429:A=1,T=33,G=2, 0:0:0:T=33,G=1,
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58 phiX174 1240 . A C 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:0,0:0,0:A=32,T=1, 0:0,2:0,0.0555555555556:A=34,C=2,T=1,
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59 phiX174 1245 . G T 0 . AC=4;AF=0.0625 GT:AC:AF:NC 0:2:0.0666666666667:C=1,T=2,G=28, 0:2:0.0588235294118:T=2,G=32,
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60 phiX174 1247 . A T 0 . AC=2;AF=0.031746031746 GT:AC:AF:NC 0:2:0.0714285714286:A=26,C=1,T=2,G=1, 0:0:0:A=35,
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61 phiX174 1250 . A C 0 . AC=2;AF=0.0307692307692 GT:AC:AF:NC 0:2:0.0769230769231:A=24,C=2, 0:0:0:A=39,
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62 phiX174 1251 . A G 0 . AC=3;AF=0.044776119403 GT:AC:AF:NC 0:0:0:A=29, 0:3:0.0789473684211:A=35,C=1,G=3,
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63 phiX174 1253 . T G 0 . AC=4;AF=0.0526315789474 GT:AC:AF:NC 0:2:0.0645161290323:T=29,G=2, 0:2:0.0444444444444:T=43,G=2,
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64 phiX174 1257 . T G 0 . AC=2;AF=0.0281690140845 GT:AC:AF:NC 0:0:0:T=26, 0:2:0.0444444444444:T=43,G=2,
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65 phiX174 1259 . A C 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:0:0:A=28,T=1, 0:2:0.0444444444444:A=43,C=2,G=1,
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66 phiX174 1274 . G C 0 . AC=2;AF=0.0240963855422 GT:AC:AF:NC 0:2:0.0512820512821:C=2,G=37, 0:0:0:G=44,
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67 phiX174 1277 . A C 0 . AC=2;AF=0.025 GT:AC:AF:NC 0:2:0.05:A=38,C=2, 0:0:0:A=40,G=1,
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68 phiX174 1279 . T G 0 . AC=2;AF=0.0253164556962 GT:AC:AF:NC 0:0:0:T=39,G=1, 0:2:0.05:C=1,T=38,G=2,
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69 phiX174 1284 . T G,C 0 . AC=3,2;AF=0.038961038961,0.025974025974 GT:AC:AF:NC 0:3,2:0.075,0.05:C=2,T=35,G=3, 0:0,0:0,0:A=1,T=37,
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70 phiX174 1289 . A C 0 . AC=3;AF=0.0454545454545 GT:AC:AF:NC 0:3:0.0789473684211:A=35,C=3, 0:0:0:A=28,G=1,
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71 phiX174 1296 . A C 0 . AC=2;AF=0.03125 GT:AC:AF:NC 0:0:0:A=38, 0:2:0.0769230769231:A=24,C=2,
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72 phiX174 1298 . A C 0 . AC=3;AF=0.0491803278689 GT:AC:AF:NC 0:3,0:0.0810810810811,0:A=34,C=3,G=1, 0:0,0:0,0:A=24,C=1,T=1,G=1,
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73 phiX174 1306 . T G 0 . AC=5;AF=0.0943396226415 GT:AC:AF:NC 0:5:0.178571428571:T=23,G=5, 0:0:0:C=1,T=25,
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74 phiX174 1307 . T G 0 . AC=3;AF=0.0545454545455 GT:AC:AF:NC 0:3:0.107142857143:T=25,G=3, 0:0:0:C=1,T=27,
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75 phiX174 1314 . A G 0 . AC=5;AF=0.0877192982456 GT:AC:AF:NC 0:2,0:0.0740740740741,0:A=25,C=1,G=2, 0:3,0:0.1,0:A=27,C=1,G=3,
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76 phiX174 1317 . A C 0 . AC=2;AF=0.0322580645161 GT:AC:AF:NC 0:2:0.0740740740741:A=25,C=2, 0:0:0:A=35,
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77 phiX174 1320 . C G 0 . AC=2;AF=0.0322580645161 GT:AC:AF:NC 0:2:0.0769230769231:C=24,G=2, 0:0:0:C=36,
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78 phiX174 1322 . G C 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:3:0.107142857143:C=3,G=25, 0:0:0:G=40,
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79 phiX174 1323 . C G 0 . AC=2;AF=0.0298507462687 GT:AC:AF:NC 0:0:0:C=28, 0:2:0.0512820512821:C=37,T=1,G=2,
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80 phiX174 1329 . T C 0 . AC=2;AF=0.0277777777778 GT:AC:AF:NC 0:2:0.0666666666667:C=2,T=28, 0:0:0:T=42,G=1,
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81 phiX174 1335 . C A 0 . AC=2;AF=0.025974025974 GT:AC:AF:NC 0:2:0.0625:A=2,C=30, 0:0:0:C=45,
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82 phiX174 1338 . T A 0 . AC=2;AF=0.027027027027 GT:AC:AF:NC 0:0:0:T=32, 0:2:0.047619047619:A=2,T=40,
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83 phiX174 1345 . T C 0 . AC=2;AF=0.0253164556962 GT:AC:AF:NC 0:0,0:0,0:T=36,G=1, 0:0,2:0,0.046511627907:C=2,T=41,G=1,
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84 phiX174 1347 . A C 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0512820512821:A=37,C=2,G=1, 0:0:0:A=43,
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85 phiX174 1348 . T G 0 . AC=2;AF=0.0240963855422 GT:AC:AF:NC 0:2:0.05:T=38,G=2, 0:0:0:T=43,
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86 phiX174 1352 . A T 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:0:0:A=34,G=1, 0:2:0.0512820512821:A=37,T=2,
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87 phiX174 1354 . T G,A 0 . AC=2,2;AF=0.027027027027,0.027027027027 GT:AC:AF:NC 0:2,0:0.0526315789474,0:T=36,G=2, 0:0,2:0,0.0555555555556:A=2,T=34,G=1,
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88 phiX174 1359 . T G 0 . AC=3;AF=0.0405405405405 GT:AC:AF:NC 0:3:0.0714285714286:T=39,G=3, 0:0:0:T=32,G=1,
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89 phiX174 1366 . G C 0 . AC=3;AF=0.0428571428571 GT:AC:AF:NC 0:3:0.0714285714286:C=3,T=1,G=39, 0:0:0:G=28,
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90 phiX174 1370 . T G 0 . AC=2;AF=0.0289855072464 GT:AC:AF:NC 0:0:0:C=1,T=45,G=1, 0:2:0.0833333333333:A=1,T=22,G=2,
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91 phiX174 1373 . T G 0 . AC=2;AF=0.027027027027 GT:AC:AF:NC 0:2:0.0408163265306:T=47,G=2, 0:0:0:T=25,
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92 phiX174 1380 . G C 0 . AC=2;AF=0.0238095238095 GT:AC:AF:NC 0:0,2:0,0.0384615384615:C=2,T=1,G=50, 0:0,0:0,0:T=1,G=32,
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93 phiX174 1381 . T G 0 . AC=3;AF=0.0361445783133 GT:AC:AF:NC 0:3:0.0576923076923:A=1,T=49,G=3, 0:0:0:T=31,
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94 phiX174 1384 . T G 0 . AC=4;AF=0.0512820512821 GT:AC:AF:NC 0:4:0.0816326530612:T=45,G=4, 0:0:0:T=29,G=1,
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95 phiX174 1385 . T G 0 . AC=4;AF=0.0512820512821 GT:AC:AF:NC 0:4:0.0816326530612:T=45,G=4, 0:0:0:C=1,T=29,
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96 phiX174 1391 . A C 0 . AC=2;AF=0.0253164556962 GT:AC:AF:NC 0:2:0.0408163265306:A=47,C=2, 0:0:0:A=30,C=1,
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97 phiX174 1393 . C A 0 . AC=2;AF=0.0253164556962 GT:AC:AF:NC 0:2:0.0425531914894:A=2,C=45, 0:0:0:C=32,
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98 phiX174 1396 . T G 0 . AC=3;AF=0.04 GT:AC:AF:NC 0:3:0.0697674418605:T=40,G=3, 0:0:0:T=32,
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99 phiX174 1397 . A C 0 . AC=2;AF=0.027027027027 GT:AC:AF:NC 0:0:0:A=42,T=1, 0:2:0.0625:A=30,C=2,
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100 phiX174 1400 . A C 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:2:0.047619047619:A=40,C=2,G=1, 0:0:0:A=31,
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101 phiX174 1401 . A C 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:2:0.047619047619:A=40,C=2, 0:0:0:A=31,
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102 phiX174 1434 . C T 0 . AC=2;AF=0.0571428571429 GT:AC:AF:NC 0:2:0.142857142857:C=12,T=2, 0:0:0:C=21,
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103 phiX174 1438 . G C 0 . AC=2;AF=0.0526315789474 GT:AC:AF:NC 0:0:0:G=15, 0:2:0.0869565217391:C=2,G=21,
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104 phiX174 1450 . T G 0 . AC=3;AF=0.0789473684211 GT:AC:AF:NC 0:3:0.176470588235:A=1,C=1,T=14,G=3, 0:0:0:T=21,G=1,
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105 phiX174 1459 . T G 0 . AC=3;AF=0.075 GT:AC:AF:NC 0:3:0.142857142857:C=1,T=18,G=3, 0:0:0:T=19,
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106 phiX174 1470 . C A 0 . AC=2;AF=0.0384615384615 GT:AC:AF:NC 0:0:0:C=29, 0:2:0.0869565217391:A=2,C=21,
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107 phiX174 1484 . C G 0 . AC=2;AF=0.0384615384615 GT:AC:AF:NC 0:2:0.0740740740741:A=1,C=25,G=2, 0:0:0:C=25,
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108 phiX174 1487 . T G 0 . AC=2;AF=0.0363636363636 GT:AC:AF:NC 0:2:0.0689655172414:T=27,G=2, 0:0:0:T=26,
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109 phiX174 1491 . G T 0 . AC=2;AF=0.037037037037 GT:AC:AF:NC 0:0:0:T=1,G=26, 0:2:0.0714285714286:T=2,G=26,
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110 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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111 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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112 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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113 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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|
114 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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|
115 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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|
116 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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|
117 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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|
118 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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|
119 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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|
120 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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|
121 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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|
122 phiX174 1603 . T G 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0625:T=30,G=2, 0:0:0:T=50,
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|
123 phiX174 1606 . T G 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0666666666667:A=1,C=1,T=28,G=2, 0:0:0:T=52,
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124 phiX174 1611 . A C 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0769230769231:A=24,C=2, 0:0:0:A=56,C=1,
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125 phiX174 1613 . A G 0 . AC=2;AF=0.0240963855422 GT:AC:AF:NC 0:0:0:A=25,C=1,G=1, 0:2:0.0344827586207:A=56,G=2,
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126 phiX174 1618 . C A 0 . AC=2;AF=0.0229885057471 GT:AC:AF:NC 0:2:0.0666666666667:A=2,C=28,G=1, 0:0:0:A=1,C=57,
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127 phiX174 1619 . C A 0 . AC=2;AF=0.0229885057471 GT:AC:AF:NC 0:2:0.0666666666667:A=2,C=28, 0:0:0:C=57,
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128 phiX174 1621 . A C 0 . AC=3;AF=0.0352941176471 GT:AC:AF:NC 0:0:0:A=31,T=1,G=1, 0:3:0.0555555555556:A=51,C=3,
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|
129 phiX174 1622 . G T 0 . AC=2;AF=0.0224719101124 GT:AC:AF:NC 0:0:0:A=1,G=35, 0:2:0.037037037037:T=2,G=52,
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130 phiX174 1624 . A G 0 . AC=2;AF=0.0235294117647 GT:AC:AF:NC 0:2:0.0555555555556:A=34,T=1,G=2, 0:0:0:A=49,
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|
131 phiX174 1627 . T G,C 0 . AC=2,2;AF=0.0246913580247,0.0246913580247 GT:AC:AF:NC 0:0,0:0,0:T=37,G=1, 0:2,2:0.0454545454545,0.0454545454545:C=2,T=40,G=2,
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132 phiX174 1630 . T G 0 . AC=2;AF=0.025641025641 GT:AC:AF:NC 0:2:0.0526315789474:C=1,T=36,G=2, 0:0:0:T=40,
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|
133 phiX174 1632 . A C 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:2:0.05:A=38,C=2, 0:0:0:A=41,
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134 phiX174 1634 . T G 0 . AC=4;AF=0.0493827160494 GT:AC:AF:NC 0:2:0.047619047619:C=1,T=40,G=2, 0:2:0.0512820512821:T=37,G=2,
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135 phiX174 1635 . T G 0 . AC=3;AF=0.0365853658537 GT:AC:AF:NC 0:3:0.0714285714286:T=39,G=3, 0:0:0:T=40,
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|
136 phiX174 1639 . G A 0 . AC=3;AF=0.0405405405405 GT:AC:AF:NC 0:3:0.075:A=3,T=1,G=37, 0:0:0:G=34,
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137 phiX174 1645 . T G 0 . AC=2;AF=0.027027027027 GT:AC:AF:NC 0:2:0.0425531914894:T=45,G=2, 0:0:0:T=27,G=1,
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|
138 phiX174 1647 . A T,G,C 0 . AC=2,2,2;AF=0.0253164556962,0.0253164556962,0.0253164556962 GT:AC:AF:NC 0:0,2,2:0,0.0384615384615,0.0384615384615:A=48,C=2,G=2, 0:2,0,0:0.0740740740741,0,0:A=25,T=2,
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139 phiX174 1652 . G A 0 . AC=2;AF=0.0240963855422 GT:AC:AF:NC 0:2:0.037037037037:A=2,G=52, 0:0:0:G=29,
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140 phiX174 1656 . T G 0 . AC=3;AF=0.0348837209302 GT:AC:AF:NC 0:3:0.0555555555556:T=51,G=3, 0:0:0:T=32,G=1,
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|
141 phiX174 1658 . A C 0 . AC=2;AF=0.0240963855422 GT:AC:AF:NC 0:2:0.04:A=48,C=2, 0:0:0:A=33,
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142 phiX174 1659 . T G 0 . AC=3;AF=0.0365853658537 GT:AC:AF:NC 0:3:0.0625:C=1,T=45,G=3, 0:0:0:T=34,
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|
143 phiX174 1663 . T G 0 . AC=4;AF=0.0454545454545 GT:AC:AF:NC 0:0:0:A=1,T=53, 0:4:0.114285714286:T=31,G=4,
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|
144 phiX174 1665 . C A 0 . AC=2;AF=0.0212765957447 GT:AC:AF:NC 0:2:0.0384615384615:A=2,C=50,G=1, 0:0:0:C=42,
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145 phiX174 1670 . G C 0 . AC=2;AF=0.0224719101124 GT:AC:AF:NC 0:0,2:0,0.0408163265306:A=1,C=2,T=1,G=47, 0:0,0:0,0:T=1,G=40,
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|
146 phiX174 1671 . G T 0 . AC=2;AF=0.0212765957447 GT:AC:AF:NC 0:2:0.0384615384615:C=1,T=2,G=50, 0:0:0:G=42,
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147 phiX174 1672 . A G 0 . AC=3;AF=0.0315789473684 GT:AC:AF:NC 0:3:0.0545454545455:A=52,G=3, 0:0:0:A=40,T=1,
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|
148 phiX174 1673 . G T 0 . AC=2;AF=0.0212765957447 GT:AC:AF:NC 0:2:0.0377358490566:C=1,T=2,G=51, 0:0:0:G=41,
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|
149 phiX174 1674 . G T 0 . AC=4;AF=0.04 GT:AC:AF:NC 0:4:0.0714285714286:T=4,G=52, 0:0:0:G=44,
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|
150 phiX174 1677 . A C 0 . AC=3;AF=0.031914893617 GT:AC:AF:NC 0:3:0.0566037735849:A=50,C=3,N=1, 0:0:0:A=41,
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|
151 phiX174 1678 . A C 0 . AC=2;AF=0.0212765957447 GT:AC:AF:NC 0:0:0:A=54,C=1,G=1, 0:2:0.05:A=38,C=2,
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152 phiX174 1682 . T C 0 . AC=2;AF=0.0229885057471 GT:AC:AF:NC 0:2:0.0408163265306:C=2,T=47,G=1, 0:0:0:C=1,T=38,
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153 phiX174 1685 . T G 0 . AC=2;AF=0.0238095238095 GT:AC:AF:NC 0:2:0.046511627907:A=1,T=41,G=2, 0:0:0:T=41,G=1,
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154 phiX174 1686 . A C 0 . AC=2;AF=0.025641025641 GT:AC:AF:NC 0:0:0:A=39,C=1,T=1,G=1, 0:2:0.0512820512821:A=37,C=2,
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155 phiX174 1687 . T C 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.047619047619:C=2,T=40, 0:0:0:A=1,T=40,
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156 phiX174 1688 . G C 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:2:0.05:C=2,T=1,G=38, 0:0:0:G=41,
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|
157 phiX174 1689 . A C 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0487804878049:A=39,C=2,T=1,G=1, 0:0:0:A=41,C=1,
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158 phiX174 1691 . G C 0 . AC=2;AF=0.025974025974 GT:AC:AF:NC 0:2:0.05:C=2,T=1,G=38, 0:0:0:G=37,
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|
159 phiX174 1693 . T G 0 . AC=2;AF=0.0238095238095 GT:AC:AF:NC 0:0:0:T=42,G=1, 0:2:0.047619047619:T=40,G=2,
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160 phiX174 1695 . A C 0 . AC=2;AF=0.0232558139535 GT:AC:AF:NC 0:2:0.046511627907:A=41,C=2, 0:0:0:A=43,C=1,
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|
161 phiX174 1702 . T C 0 . AC=2;AF=0.0246913580247 GT:AC:AF:NC 0:2:0.0512820512821:A=1,C=2,T=37, 0:0:0:C=1,T=42,
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162 phiX174 1707 . T C 0 . AC=2;AF=0.0232558139535 GT:AC:AF:NC 0:2:0.05:C=2,T=38, 0:0:0:T=46,G=1,
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|
163 phiX174 1708 . A C 0 . AC=2;AF=0.0238095238095 GT:AC:AF:NC 0:2:0.0526315789474:A=36,C=2, 0:0:0:A=46,C=1,G=1,
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|
164 phiX174 1710 . T C 0 . AC=2;AF=0.025 GT:AC:AF:NC 0:0:0:C=1,T=34, 0:2:0.0434782608696:C=2,T=44,
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165 phiX174 1723 . T C 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0588235294118:C=2,T=32, 0:0:0:T=48,
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|
166 phiX174 1724 . A C 0 . AC=4;AF=0.0481927710843 GT:AC:AF:NC 0:2:0.0571428571429:A=33,C=2, 0:2:0.0416666666667:A=46,C=2,
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167 phiX174 1725 . A C 0 . AC=2;AF=0.0243902439024 GT:AC:AF:NC 0:2:0.0606060606061:A=31,C=2, 0:0:0:A=49,
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|
168 phiX174 1726 . T G 0 . AC=3;AF=0.037037037037 GT:AC:AF:NC 0:3:0.0882352941176:T=31,G=3, 0:0:0:C=1,T=47,
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|
169 phiX174 1730 . T G 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:0:0:C=1,T=28, 0:2:0.0444444444444:T=43,G=2,
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170 phiX174 1739 . G T 0 . AC=3;AF=0.0434782608696 GT:AC:AF:NC 0:3:0.09375:T=3,G=29, 0:0:0:G=37,
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|
171 phiX174 1746 . A C 0 . AC=2;AF=0.0338983050847 GT:AC:AF:NC 0:2:0.0689655172414:A=27,C=2, 0:0:0:A=30,C=1,G=1,
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|
172 phiX174 1749 . T G,C 0 . AC=3,2;AF=0.044776119403,0.0298507462687 GT:AC:AF:NC 0:3,2:0.0857142857143,0.0571428571429:C=2,T=30,G=3, 0:0,0:0,0:T=32,G=1,
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|
173 phiX174 1755 . G C 0 . AC=2;AF=0.027397260274 GT:AC:AF:NC 0:2:0.05:C=2,G=38, 0:0:0:C=1,G=33,
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|
174 phiX174 1756 . A G,C 0 . AC=2,2;AF=0.0281690140845,0.0281690140845 GT:AC:AF:NC 0:0,2:0,0.0526315789474:A=36,C=2,T=1,G=1, 0:2,0:0.0606060606061,0:A=31,C=1,G=2,
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175 phiX174 1761 . A G 0 . AC=2;AF=0.0285714285714 GT:AC:AF:NC 0:2:0.0512820512821:A=37,C=1,G=2, 0:0:0:A=31,
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|
176 phiX174 1764 . A C 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:2:0.05:A=38,C=2, 0:0:0:A=28,
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|
177 phiX174 1766 . A C 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:2:0.0487804878049:A=39,C=2, 0:0:0:A=27,
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|
178 phiX174 1769 . T G 0 . AC=2;AF=0.03125 GT:AC:AF:NC 0:2:0.0526315789474:A=1,C=1,T=36,G=2, 0:0:0:T=26,G=1,
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|
179 phiX174 1771 . G C 0 . AC=2;AF=0.0298507462687 GT:AC:AF:NC 0:2:0.0526315789474:C=2,G=36, 0:0:0:G=29,
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|
180 phiX174 1772 . T G 0 . AC=4;AF=0.0597014925373 GT:AC:AF:NC 0:4:0.108108108108:C=1,T=33,G=4, 0:0:0:T=30,
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|
181 phiX174 1774 . A G 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:3:0.0810810810811:A=34,G=3, 0:0:0:A=31,
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|
182 phiX174 1775 . G A 0 . AC=2;AF=0.030303030303 GT:AC:AF:NC 0:2:0.0571428571429:A=2,G=33, 0:0:0:G=31,
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|
183 phiX174 1776 . G T 0 . AC=2;AF=0.0289855072464 GT:AC:AF:NC 0:2:0.0540540540541:T=2,G=35, 0:0:0:G=32,
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|
184 phiX174 1778 . C G 0 . AC=2;AF=0.0289855072464 GT:AC:AF:NC 0:2:0.0526315789474:C=36,G=2, 0:0:0:C=31,
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|
185 phiX174 1779 . A C 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:3:0.075:A=37,C=3, 0:0:0:A=28,
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|
186 phiX174 1781 . T G 0 . AC=5;AF=0.0714285714286 GT:AC:AF:NC 0:2:0.0487804878049:C=1,T=39,G=2, 0:3:0.103448275862:T=26,G=3,
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|
187 phiX174 1782 . T G 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:3:0.075:T=37,G=3, 0:0:0:A=1,T=28,
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|
188 phiX174 1783 . T C 0 . AC=2;AF=0.0298507462687 GT:AC:AF:NC 0:2:0.0512820512821:C=2,T=37, 0:0:0:T=28,G=1,
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|
189 phiX174 1788 . G T 0 . AC=2;AF=0.0344827586207 GT:AC:AF:NC 0:0:0:A=1,T=1,G=29, 0:2:0.0689655172414:T=2,G=27,
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|
190 phiX174 1792 . T G 0 . AC=2;AF=0.0344827586207 GT:AC:AF:NC 0:2:0.0606060606061:T=31,G=2, 0:0:0:T=25,G=1,
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|
191 phiX174 1802 . A C 0 . AC=2;AF=0.030303030303 GT:AC:AF:NC 0:2:0.0571428571429:A=33,C=2, 0:0:0:A=31,C=1,
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|
192 phiX174 1804 . C T 0 . AC=2;AF=0.0294117647059 GT:AC:AF:NC 0:2:0.0588235294118:A=1,C=32,T=2, 0:0:0:C=34,
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|
193 phiX174 1805 . T G 0 . AC=3;AF=0.0441176470588 GT:AC:AF:NC 0:3:0.0857142857143:T=32,G=3, 0:0:0:T=33,G=1,
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|
194 phiX174 1806 . A C 0 . AC=2;AF=0.0289855072464 GT:AC:AF:NC 0:2:0.0571428571429:A=33,C=2, 0:0:0:A=34,G=1,
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|
195 phiX174 1824 . G C 0 . AC=2;AF=0.0281690140845 GT:AC:AF:NC 0:2:0.0714285714286:C=2,T=1,G=26, 0:0:0:G=43,
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|
196 phiX174 1825 . T G 0 . AC=2;AF=0.0281690140845 GT:AC:AF:NC 0:2:0.0689655172414:T=27,G=2, 0:0:0:T=42,G=1,
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|
197 phiX174 1833 . T G 0 . AC=2;AF=0.0289855072464 GT:AC:AF:NC 0:0:0:A=1,T=24, 0:2:0.0444444444444:T=43,G=2,
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|
198 phiX174 1843 . T G 0 . AC=2;AF=0.031746031746 GT:AC:AF:NC 0:2:0.08:A=1,T=23,G=2, 0:0:0:T=38,
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|
199 phiX174 1847 . A C 0 . AC=2;AF=0.0333333333333 GT:AC:AF:NC 0:2:0.0833333333333:A=22,C=2,T=1,G=1, 0:0:0:A=36,
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|
200 phiX174 1854 . T G 0 . AC=2;AF=0.0298507462687 GT:AC:AF:NC 0:0:0:T=26, 0:2:0.0487804878049:T=39,G=2,
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|
201 phiX174 1860 . T G 0 . AC=2;AF=0.0377358490566 GT:AC:AF:NC 0:0:0:A=1,T=20, 0:2:0.0606060606061:T=31,G=2,
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|
202 phiX174 1863 . C G 0 . AC=2;AF=0.0384615384615 GT:AC:AF:NC 0:2:0.105263157895:A=1,C=17,G=2, 0:0:0:C=33,
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|
203 phiX174 1866 . T G 0 . AC=2;AF=0.04 GT:AC:AF:NC 0:0:0:T=19,G=1, 0:2:0.0645161290323:T=29,G=2,
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|
204 phiX174 1875 . T A 0 . AC=2;AF=0.0377358490566 GT:AC:AF:NC 0:2:0.0952380952381:A=2,T=19, 0:0:0:T=32,G=1,
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|
205 phiX174 1876 . T G 0 . AC=3;AF=0.0588235294118 GT:AC:AF:NC 0:3:0.157894736842:C=1,T=16,G=3, 0:0:0:T=32,G=1,
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|
206 phiX174 1882 . T G 0 . AC=2;AF=0.0377358490566 GT:AC:AF:NC 0:2:0.105263157895:T=17,G=2, 0:0:0:T=34,
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|
207 phiX174 1889 . A C 0 . AC=2;AF=0.04 GT:AC:AF:NC 0:2:0.0869565217391:A=21,C=2, 0:0:0:A=27,
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208 phiX174 1913 . G C 0 . AC=2;AF=0.04 GT:AC:AF:NC 0:0:0:G=27, 0:2:0.0869565217391:C=2,G=21,
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|
209 phiX174 1915 . T G 0 . AC=2;AF=0.0425531914894 GT:AC:AF:NC 0:0:0:A=1,T=24, 0:2:0.0869565217391:T=21,G=2,
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|
210 phiX174 1917 . A T 0 . AC=2;AF=0.0444444444444 GT:AC:AF:NC 0:2,0:0.0833333333333,0:A=22,T=2,G=1, 0:0,0:0,0:A=21,G=1,
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211 phiX174 1930 . T A 0 . AC=2;AF=0.0526315789474 GT:AC:AF:NC 0:2:0.0909090909091:A=2,T=20, 0:0:0:T=16,
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212 phiX174 1934 . A C 0 . AC=2;AF=0.0512820512821 GT:AC:AF:NC 0:2:0.0952380952381:A=19,C=2,T=1, 0:0:0:A=18,C=1,
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213 phiX174 1940 . A C 0 . AC=2;AF=0.046511627907 GT:AC:AF:NC 0:2:0.0952380952381:A=19,C=2, 0:0:0:A=22,C=1,
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214 phiX174 1942 . T G 0 . AC=2;AF=0.047619047619 GT:AC:AF:NC 0:0:0:T=19, 0:2:0.0869565217391:T=21,G=2,
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215 phiX174 1945 . T G 0 . AC=3;AF=0.0769230769231 GT:AC:AF:NC 0:0:0:T=15,G=1, 0:3:0.125:T=21,G=3,
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216 phiX174 1954 . T C 0 . AC=2;AF=0.0625 GT:AC:AF:NC 0:0,0:0,0:T=12,G=1, 0:0,2:0,0.1:C=2,T=18,G=1,
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217 phiX174 1959 . T G 0 . AC=2;AF=0.0555555555556 GT:AC:AF:NC 0:2:0.153846153846:T=11,G=2, 0:0:0:T=23,
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218 phiX174 1994 . A C 0 . AC=2;AF=0.0512820512821 GT:AC:AF:NC 0:2:0.153846153846:A=11,C=2, 0:0:0:A=26,
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219 phiX174 1998 . A G 0 . AC=2;AF=0.05 GT:AC:AF:NC 0:2:0.142857142857:A=12,G=2, 0:0:0:A=26,
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