-------------------------------------------------------------------------------------------------------------- FILTER #SNPs #dbSNP %dbSNP %CpG %CpG %Known %Novel %nCpG-K %nCpG-N %HM3 %HM3 Known Novel Ts/Tv Ts/Tv Ts/Tv Ts/Tv sens /SNP -------------------------------------------------------------------------------------------------------------- AB70 6 2 33.3 0.0 25.0 1.00 NA 1.00 NA 0.000 0.000 AB70;AOI5 1 0 0.0 NA 0.0 NA NA NA NA 0.000 0.000 AB70;STR20 4 1 25.0 0.0 33.3 NA 2.00 NA 1.00 0.000 0.000 AB70;STR20;STZ5 4 0 0.0 NA 0.0 NA 0.33 NA 0.33 0.000 0.000 AB70;STR20;STZ5;fic-20 8 1 12.5 0.0 14.3 0.00 1.33 0.00 1.00 0.000 0.000 AB70;STR20;fic-20 1 0 0.0 NA 0.0 NA 0.00 NA 0.00 0.000 0.000 AB70;str-20 2 0 0.0 NA 0.0 NA 0.00 NA 0.00 0.000 0.000 AB70;str-20;AOI5 1 0 0.0 NA 0.0 NA 0.00 NA 0.00 0.000 0.000 AB70;str-20;fic-20 1 1 100.0 0.0 NA NA NA NA NA 0.000 0.000 AB70;str-20;stz-5 2 0 0.0 NA 0.0 NA 0.00 NA 0.00 0.000 0.000 AB70;str-20;stz-5;fic-20 5 1 20.0 0.0 0.0 0.00 NA 0.00 NA 0.000 0.000 AOI5 1 0 0.0 NA 0.0 NA NA NA NA 0.000 0.000 INDEL5 2 2 100.0 0.0 NA 1.00 NA 1.00 NA 0.000 0.000 INDEL5;AB70;STR20 1 0 0.0 NA 0.0 NA 0.00 NA 0.00 0.000 0.000 INDEL5;fic-20 1 1 100.0 0.0 NA 0.00 NA 0.00 NA 0.000 0.000 INDEL5;str-20;stz-5 1 0 0.0 NA 0.0 NA NA NA NA 0.000 0.000 PASS 749 692 92.4 21.8 17.5 2.08 1.59 1.75 1.35 0.320 15.888 STR20 9 5 55.6 20.0 25.0 1.50 1.00 1.00 0.50 0.003 11.111 STR20;STZ5 5 1 20.0 0.0 0.0 NA 0.33 NA 0.33 0.000 0.000 STR20;STZ5;fic-20 3 3 100.0 33.3 NA 0.50 NA 0.00 NA 0.000 0.000 STR20;fic-20 2 0 0.0 NA 0.0 NA NA NA NA 0.000 0.000 dp60 2 1 50.0 0.0 0.0 NA NA NA NA 0.000 0.000 dp60;STR20 1 1 100.0 0.0 NA NA NA NA NA 0.000 0.000 dp60;STR20;fic-20 6 4 66.7 0.0 0.0 NA NA NA NA 0.000 0.000 dp60;fic-20 1 0 0.0 NA 0.0 NA NA NA NA 0.000 0.000 dp60;str-20;fic-20 2 1 50.0 0.0 0.0 NA NA NA NA 0.000 0.000 fic-20 36 36 100.0 16.7 NA 2.27 NA 2.00 NA 0.022 22.222 str-20 8 4 50.0 50.0 0.0 NA 1.00 NA 1.00 0.003 12.500 str-20;fic-20 1 1 100.0 0.0 NA NA NA NA NA 0.000 0.000 str-20;stz-5 2 0 0.0 NA 0.0 NA 1.00 NA 1.00 0.000 0.000 str-20;stz-5;fic-20 4 2 50.0 0.0 0.0 NA 0.00 NA 0.00 0.000 0.000 -------------------------------------------------------------------------------------------------------------- FILTER #SNPs #dbSNP %dbSNP %CpG %CpG %Known %Novel %nCpG-K %nCpG-N %HM3 %HM3 Known Novel Ts/Tv Ts/Tv Ts/Tv Ts/Tv sens /SNP -------------------------------------------------------------------------------------------------------------- AB70 36 6 16.7 0.0 10.0 1.00 1.14 1.00 0.93 0.000 0.000 AOI5 3 0 0.0 NA 0.0 NA 2.00 NA 2.00 0.000 0.000 INDEL5 5 3 60.0 0.0 0.0 0.50 1.00 0.50 1.00 0.000 0.000 PASS 749 692 92.4 21.8 17.5 2.08 1.59 1.75 1.35 0.320 15.888 STR20 44 16 36.4 12.5 10.7 2.20 1.00 1.80 0.79 0.003 2.273 STZ5 20 5 25.0 20.0 6.7 0.67 0.67 0.33 0.56 0.000 0.000 dp60 12 7 58.3 0.0 0.0 NA NA NA NA 0.000 0.000 fic-20 71 51 71.8 13.7 5.0 2.19 2.33 1.93 2.17 0.022 11.268 str-20 29 10 34.5 20.0 0.0 9.00 0.90 7.00 0.90 0.003 3.448 stz-5 14 3 21.4 0.0 0.0 2.00 1.20 2.00 1.20 0.000 0.000 -------------------------------------------------------------------------------------------------------------- PASS 749 692 92.4 21.8 17.5 2.08 1.59 1.75 1.35 0.320 15.888 FAIL 123 68 55.3 14.7 7.3 2.40 1.29 2.05 1.12 0.027 8.130 TOTAL 872 760 87.2 21.2 12.5 2.10 1.43 1.77 1.23 0.347 14.794 ------------------------------------------------------------------------------------------------------------