SNP_(1) Chromosome Physical_position_(2) Genetic_position_(3) Reference_allele_(4) 2nd_allele Molecular_feature_(5) Reference_genome_(6) A6140_(7) SA1 SA2 SA3 SA4 ST1 ST2 ST3 ST4 ST5 ST6 ST7 SM1 SM2 SM3 SM4 SM5 SM6 SM7 GA1 GA2 GA3 GA4 GT1 GT2 GT3 GT5 GM1 GM2 GM3 GM5 CA1 CA2 CA3 CT1 CT2 CT3 CM1 CM2 CM3 pas1 IV 467151 0 G T Intron CB4858 46 15 16 12 13 30 14 15 16 14 16 15 13 14 16 15 13 14 14 14 14 14 16 16 16 16 16 14 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-507 IV 781321 0.48958 A C Intron CB4856 47 15 16 13 15 31 13 15 16 14 16 16 13 15 16 15 13 14 14 14 15 14 16 16 16 16 16 15 14 14 13 15 13 15 12 16 15 12 15 11 haw50300 IV 874853 0.79904 T C Intron CB4856 46 15 16 14 12 29 14 14 16 13 16 15 13 15 15 15 13 14 15 14 13 14 16 16 16 16 16 13 16 13 14 14 12 14 12 16 15 10 13 14 CE4-228 IV 1063709 2.5062 A G Intergenic CB4856 45 15 16 14 13 29 14 14 16 13 16 14 13 16 13 15 13 14 15 14 13 14 16 16 16 16 15 12 16 13 14 15 12 14 12 16 15 10 13 14 uCE4-540 IV 1339309 6.52981 A C 3' UTR CB4856 45 15 16 12 13 26 13 13 16 14 16 16 13 15 15 15 13 14 14 14 15 14 15 16 16 16 15 15 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-566 IV 1488728 7.76327 C A Intron CB4856 47 15 16 14 14 29 14 14 16 13 16 15 13 15 13 15 13 14 15 14 13 14 16 16 16 16 16 12 16 13 14 15 12 14 12 16 15 11 13 14 haw51312 IV 1536151 8.11557 T A Intron CB4856 46 15 16 13 13 28 13 14 16 13 16 12 13 15 13 15 13 14 15 14 13 14 15 16 16 16 15 13 16 13 14 15 12 14 12 12 15 11 12 14 uCE4-576 IV 1550204 8.21997 A G Exon (missense) CB4856 47 15 16 12 15 30 14 14 16 14 16 16 13 15 14 15 13 14 14 14 15 14 15 16 16 16 16 14 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-580 IV 1551262 8.22783 C - Intron CB4856 46 15 16 12 15 31 14 14 16 14 16 16 13 15 13 15 13 14 14 14 15 14 15 16 16 16 15 13 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-581 IV 1556814 8.26908 G A Intron CB4856 44 15 16 12 14 29 14 14 16 14 16 16 13 15 15 15 13 14 14 14 15 14 15 16 16 16 16 15 16 14 14 14 13 15 12 16 15 12 15 14 uCE4-598 IV 1742880 9.52856 T C Intron CB4856 45 15 16 12 15 31 14 14 15 14 16 15 13 14 16 15 13 14 14 14 15 14 16 16 16 16 15 15 16 14 13 15 13 14 11 16 15 12 15 14 uCE4-603 IV 1836308 10.77468 G T Exon (silent) CB4856 41 14 16 13 13 29 13 14 14 13 16 15 13 15 14 15 13 14 14 14 14 14 16 16 16 16 15 14 16 14 14 14 13 14 12 14 15 10 15 14 uCE4-606 IV 1880589 11.44259 G T 3' UTR CB4856 NA 14 16 12 11 27 14 13 15 13 14 15 13 14 12 15 13 13 14 14 15 14 15 15 16 16 15 13 16 14 14 13 13 15 12 15 15 11 15 13 uCE4-610 IV 1919560 12.23937 C A Exon (missense) CB4856 47 15 16 14 15 29 13 14 16 13 16 15 13 15 12 15 13 14 15 14 13 14 16 16 16 16 15 13 16 13 14 15 11 14 12 16 15 11 13 14 haw52330 IV 2144755 14.63759 A G Intron CB4856 47 15 16 14 13 29 14 15 16 13 16 15 13 15 11 15 13 14 15 14 13 14 16 16 16 16 15 12 16 13 14 15 12 14 12 15 15 11 13 14 haw53671 IV 2778962 19.17343 A G Intron CB4856 42 15 16 12 11 28 14 13 15 13 14 15 13 14 13 15 13 14 14 14 14 14 15 16 15 16 15 14 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-832 IV 4008342 25.74443 C T Intron CB4856 48 14 16 14 14 28 13 13 15 13 16 15 13 15 14 15 13 14 15 13 13 14 16 16 16 16 15 13 16 13 14 15 12 14 12 16 15 11 13 14 pas16080 IV 5151696 28.51761 T C Intergenic CB4858 48 15 16 14 14 29 14 15 16 13 16 15 13 15 14 15 13 14 15 14 13 14 16 16 16 16 16 13 16 13 14 15 11 14 12 15 15 11 13 14 uCE4-1023 IV 8193378 31.83488 G T Intron CB4856 37 15 16 14 14 27 13 13 15 13 16 15 13 15 12 15 13 14 15 14 13 14 16 16 16 16 15 11 16 13 14 15 12 14 12 15 15 11 13 14 uCE4-1027 IV 8271873 31.8772 G A Exon (silent) CB4856 47 14 16 12 14 30 13 13 16 14 15 15 13 15 14 15 13 14 14 14 14 14 16 16 16 16 16 15 16 14 14 15 13 15 12 16 15 12 15 14 pas20842 IV 8535097 31.96657 C T Intron CB4858 45 15 16 14 14 29 13 15 16 13 15 15 13 15 15 15 13 14 15 14 13 14 15 16 16 16 16 11 16 13 14 15 11 14 12 16 15 11 13 14 uCE4-1059 IV 8569553 32.03717 T A Intron (splice site) CB4856 NA 15 16 14 14 29 14 15 16 13 14 14 13 15 14 15 13 14 15 14 13 14 16 16 16 16 16 12 16 13 14 14 12 14 12 16 15 11 13 14 uCE4-1072 IV 9315569 32.92537 G A Exon (missense) CB4856 44 15 16 12 13 29 14 13 16 14 15 16 13 14 13 15 13 14 14 14 15 14 15 16 16 16 16 15 16 14 14 15 13 15 12 16 15 12 15 14 pas22097 IV 9390314 32.92537 G T Exon (silent) CB4858 48 15 16 12 15 30 14 15 16 14 16 16 13 15 15 15 13 14 14 14 15 14 16 16 16 16 16 14 16 14 14 15 13 15 12 16 15 12 15 14 uCE4-1080 IV 9548887 32.92537 A G Intron CB4856 46 15 16 12 13 29 13 14 16 14 15 16 13 15 13 15 13 14 14 14 13 14 15 16 16 16 16 13 16 14 14 14 13 15 12 15 15 12 15 14 uCE4-1086 IV 10073916 33.56682 C T Exon (missense) CB4856 40 15 16 12 15 30 13 13 16 14 16 16 13 15 14 15 13 14 14 14 15 14 15 16 16 16 16 13 16 14 14 14 13 15 12 15 15 12 15 14 uCE4-1116 IV 10653079 33.88993 C T Exon (missense) CB4856 44 15 16 13 15 31 14 15 16 14 16 16 13 15 16 15 13 14 14 14 15 14 16 16 16 16 16 15 16 14 14 15 13 15 12 16 15 12 15 14 CE4-172 IV 10677530 33.88993 A G Intergenic CB4856 45 15 16 14 14 29 14 14 16 13 16 14 13 15 14 15 13 14 15 14 13 14 16 16 16 16 16 13 16 13 14 15 12 14 12 16 15 11 13 14 pas22978 IV 10769341 33.98274 G T Intergenic CB4858 48 15 16 12 13 31 14 13 16 14 16 16 13 15 13 15 13 14 14 14 15 14 15 16 16 16 16 15 16 14 14 15 13 15 12 14 15 12 15 14 pas4467 IV 11477716 34.29103 G C Exon (silent) CB4858 48 15 16 12 15 30 14 15 16 14 16 16 13 15 14 15 13 14 14 14 15 14 15 16 16 16 15 14 16 14 14 15 13 15 12 16 15 12 15 14 pas23450 IV 11550350 34.46936 A G Exon (missense) CB4858 48 15 16 12 13 29 14 15 16 14 16 16 13 15 14 15 13 14 14 14 14 14 16 16 16 16 16 15 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-1156 IV 11804464 34.69693 C T Intergenic CB4856 41 15 16 14 15 28 14 14 15 13 16 15 13 16 15 15 13 14 15 14 13 14 16 16 16 16 16 12 15 13 14 15 12 14 12 16 15 11 13 14 CE4-185 IV 12382899 35.49994 G A Intergenic CB4856 47 15 16 14 14 29 14 14 16 13 16 15 13 15 15 15 13 14 15 14 13 14 16 16 16 16 15 12 16 13 14 15 11 14 12 15 15 10 13 14 uCE4-1193 IV 12771081 36.71134 T G Intergenic CB4856 48 15 16 12 14 31 14 14 16 14 15 16 13 15 13 15 13 14 14 14 14 14 16 16 16 16 16 14 16 14 14 15 13 15 12 16 15 12 15 14 uCE4-1194 IV 12780085 36.71134 C T Intron CB4856 47 15 16 13 13 30 14 13 16 14 15 16 13 15 14 15 13 14 14 14 14 14 15 16 16 16 15 14 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-1216 IV 12985062 37.2232 A C Exon (missense) CB4856 NA 13 14 12 8 22 10 11 8 11 14 14 9 13 12 15 11 13 14 14 15 14 15 14 16 16 15 9 15 11 13 11 12 15 11 13 15 9 14 11 uCE4-1238 IV 13082494 37.67753 A G Exon (missense) CB4856 45 15 16 14 14 29 14 13 16 13 16 15 13 16 13 15 13 14 15 14 13 14 16 16 16 16 15 13 16 13 14 15 12 14 12 16 15 11 13 14 uCE4-1266 IV 13904323 40.03491 T C RNA gene CB4856 46 15 16 14 15 29 14 14 16 13 16 15 13 15 14 15 13 14 15 14 13 14 16 16 16 16 15 13 16 13 14 15 12 14 12 16 15 11 13 14 uCE4-1290 IV 14158021 40.52041 C A Intergenic CB4856 45 15 16 14 14 28 14 13 16 13 16 14 13 15 15 15 13 14 15 14 13 14 16 16 16 16 15 12 16 13 14 15 12 14 12 16 15 11 13 14 pas27670 IV 14199814 40.64957 T G Intron CB4858 46 15 15 13 12 26 14 14 15 14 15 15 13 15 13 14 13 14 14 14 14 14 15 16 16 16 15 14 16 14 14 15 13 15 12 15 15 12 15 14 uCE4-1320 IV 14335306 41.00994 T G Exon (missense) CB4856 46 15 16 14 15 29 14 14 16 13 16 15 13 15 15 15 13 14 15 14 13 14 15 16 16 16 16 13 16 13 14 15 12 14 12 16 15 11 13 14 pas5916 IV 14347377 41.0957 A G Pseudogene CB4858 46 15 16 14 14 28 14 14 16 13 16 15 13 15 12 15 13 14 15 14 13 14 16 16 16 16 15 12 16 13 14 15 12 14 12 16 15 9 13 14 uCE4-1337 IV 14423622 41.24951 A G Intergenic CB4856 NA 15 16 14 14 27 13 15 16 13 16 15 13 16 15 15 13 13 14 14 13 14 15 16 16 16 15 13 16 12 13 15 11 14 12 16 15 10 13 14 uCE4-1425 IV 15141339 42.56269 C T Intergenic CB4856 42 15 16 14 15 29 14 15 15 13 16 15 13 15 13 15 13 14 15 14 13 14 16 16 16 16 15 11 16 13 13 15 12 14 12 15 15 10 13 14 haw64011 IV 15264869 43.02421 G A Exon (silent) CB4856 47 15 15 12 14 30 14 14 16 13 16 16 13 15 14 15 13 14 14 14 15 14 15 16 16 16 15 15 16 14 14 14 13 15 12 16 15 12 15 14 pas29606 IV 16606982 49.84004 G T Intergenic CB4858 47 15 16 12 15 30 14 14 16 14 16 16 13 15 16 15 13 14 14 14 15 14 15 16 16 16 16 14 16 14 14 15 13 15 12 14 15 12 15 14 uCE4-1597 IV 16622299 49.84004 G A Intron CB4856 47 15 16 12 15 31 14 15 16 14 16 16 13 15 16 15 13 14 14 14 15 14 16 16 16 16 16 15 16 14 14 15 13 15 12 16 15 12 15 14 pas29664 IV 16669276 49.86853 G T Intergenic CB4858 47 15 16 14 15 29 14 14 16 13 16 15 13 16 15 15 13 14 15 14 13 14 16 16 16 16 16 12 16 13 14 15 12 14 12 16 15 10 13 14 pas6616 IV 16686301 49.88921 T C Intergenic CB4858 44 15 16 12 13 29 14 13 16 14 15 15 13 14 12 15 13 14 14 14 14 14 14 16 16 16 16 14 16 14 14 14 13 15 12 15 15 12 15 14 uCE4-1606 IV 16777526 50 T C Exon (silent) CB4856 45 15 16 14 14 27 14 14 16 13 16 15 13 15 13 15 13 14 15 14 13 14 16 16 16 16 14 13 16 13 14 15 12 14 12 16 15 11 13 14 pas6625 IV 16840936 50 C G Intergenic CB4858 NA 15 15 14 15 28 14 14 16 13 16 14 13 16 14 15 13 14 15 14 13 14 15 16 16 16 15 12 16 12 14 15 12 14 12 16 15 11 13 14 uCE4-1635 IV 17237255 50 A G RNA gene CB4856 NA 15 16 14 15 28 14 14 16 13 16 15 12 15 15 15 13 14 15 14 13 14 16 16 16 16 14 12 16 13 14 15 12 14 12 16 15 11 13 14 pas6981 IV 17284596 50 G T Exon (missense) CB4858 48 15 16 13 15 31 14 13 16 14 16 16 13 15 15 15 13 14 14 14 15 14 15 16 16 16 16 15 16 14 14 15 13 15 12 16 15 12 15 14 CE4-221 IV 17297280 50 T C Intergenic CB4856 45 11 14 9 14 29 13 13 16 12 16 14 13 15 13 15 12 14 15 13 13 13 15 16 16 16 16 4 13 9 12 15 11 14 11 16 15 9 10 13 pas30723 IV 17363659 50 T C Intron CB4858 47 15 16 14 14 28 14 14 16 13 16 15 13 15 14 15 13 14 15 14 13 14 15 16 16 16 15 13 16 12 14 15 12 14 12 16 15 11 13 14 pas30725 IV 17368088 50 T C Intergenic CB4858 48 14 16 12 14 30 14 15 16 14 16 16 13 15 14 15 13 14 14 14 15 14 15 16 16 16 16 13 16 14 14 15 13 15 12 16 15 12 15 14 pas6985 IV 17433033 50.00001 A G Intron CB4858 47 15 16 13 14 30 14 15 16 14 16 16 13 15 16 15 13 14 13 14 14 14 16 16 16 16 16 15 16 14 14 15 12 15 12 16 15 12 15 14 pas30738 IV 17473959 50.00001 T G Intergenic CB4858 45 15 16 14 14 29 14 13 16 13 15 15 13 15 14 15 13 14 15 14 13 14 16 16 16 16 15 12 16 13 14 15 12 14 12 16 15 11 13 14 Notes: (1) Wormbase designation release WS220 (2) Physical position in basepair of the reference N2 wild isolate genome; WS220 (3) Genetic position predicted from regressing physical position onto the genetic positions of Rockman and Kruglyak (2009) by linear interpolation (4) Reference allele of N2 wild isolate genome; WS220 (5) A SNP was considered to be intergenic whenever its position is not in any coding sequence (6) CGC wild type designation (7) This and following columns indicate the number of genotypes at each population sample obtained after quality control