Reference allele is: Major

P-values for top 5 SNPs

PositionJointP68_specificP1012_sepecificP24_specificP
124652841.61053744139654e-070.7015116868277860.2191019656761810.836216980937231
124640892.34198354821323e-070.3851561324994190.1097439197689150.919955697831582
124623197.03078435178124e-060.1257345945206780.08753471418323330.999452153539346
124611041.6212475757254e-050.3897844337299790.3163601427295320.989920961428694
124701351.85130862029818e-050.07516681380307390.07947382521654050.546617762186571

Genotype info for top 5 SNPs

#CHROMPOSIDREFALTQUALFILTERINFOFORMATDGRP-021DGRP-026DGRP-028DGRP-031DGRP-032DGRP-038DGRP-040DGRP-041DGRP-042DGRP-045DGRP-048DGRP-049DGRP-057DGRP-059DGRP-069DGRP-073DGRP-075DGRP-083DGRP-085DGRP-088DGRP-091DGRP-093DGRP-100DGRP-101DGRP-105DGRP-109DGRP-129DGRP-136DGRP-138DGRP-142DGRP-149DGRP-153DGRP-158DGRP-161DGRP-176DGRP-177DGRP-181DGRP-189DGRP-195DGRP-208DGRP-217DGRP-223DGRP-227DGRP-228DGRP-229DGRP-233DGRP-235DGRP-237DGRP-239DGRP-256DGRP-280DGRP-287DGRP-301DGRP-303DGRP-304DGRP-306DGRP-307DGRP-309DGRP-310DGRP-313DGRP-315DGRP-317DGRP-318DGRP-319DGRP-320DGRP-321DGRP-324DGRP-325DGRP-332DGRP-335DGRP-336DGRP-338DGRP-340DGRP-348DGRP-350DGRP-352DGRP-354DGRP-355DGRP-356DGRP-357DGRP-358DGRP-359DGRP-360DGRP-361DGRP-362DGRP-365DGRP-367DGRP-370DGRP-371DGRP-373DGRP-374DGRP-375DGRP-377DGRP-379DGRP-380DGRP-381DGRP-382DGRP-383DGRP-385DGRP-386DGRP-390DGRP-391DGRP-392DGRP-395DGRP-397DGRP-399DGRP-405DGRP-406DGRP-409DGRP-426DGRP-427DGRP-437DGRP-439DGRP-440DGRP-441DGRP-443DGRP-461DGRP-486DGRP-491DGRP-492DGRP-502DGRP-505DGRP-508DGRP-509DGRP-513DGRP-517DGRP-528DGRP-530DGRP-531DGRP-535DGRP-551DGRP-555DGRP-559DGRP-563DGRP-566DGRP-584DGRP-589DGRP-595DGRP-596DGRP-627DGRP-630DGRP-634DGRP-639DGRP-642DGRP-646DGRP-703DGRP-705DGRP-707DGRP-712DGRP-714DGRP-716DGRP-721DGRP-727DGRP-730DGRP-732DGRP-737DGRP-738DGRP-748DGRP-757DGRP-761DGRP-765DGRP-774DGRP-776DGRP-783DGRP-786DGRP-787DGRP-790DGRP-796DGRP-799DGRP-801DGRP-802DGRP-804DGRP-805DGRP-808DGRP-810DGRP-812DGRP-818DGRP-819DGRP-820DGRP-821DGRP-822DGRP-832DGRP-837DGRP-843DGRP-849DGRP-850DGRP-852DGRP-853DGRP-855DGRP-857DGRP-859DGRP-861DGRP-879DGRP-882DGRP-884DGRP-887DGRP-890DGRP-892DGRP-894DGRP-897DGRP-900DGRP-907DGRP-908DGRP-911DGRP-913
chr3R12465284.GA.PASSAC=51GT0/00/00/00/00/01/11/10/01/10/01/11/00/00/00/00/00/00/00/01/10/00/01/11/10/00/00/01/10/00/00/00/01/11/11/10/00/00/00/01/11/10/00/00/01/10/00/00/00/00/00/00/00/00/01/10/00/00/00/01/10/00/00/01/10/00/10/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/11/10/00/01/11/00/00/00/00/00/00/00/00/00/00/01/00/00/00/01/10/00/00/00/01/10/00/01/11/10/00/00/00/00/00/01/10/01/10/01/10/00/01/10/00/00/00/00/10/01/00/00/00/00/00/00/00/00/01/11/11/10/00/00/01/11/10/00/00/01/00/00/00/00/01/10/00/01/10/00/01/10/00/00/00/01/00/00/00/00/00/00/00/00/00/00/01/10/01/10/00/01/10/00/10/00/00/01/11/10/00/00/00/00/00/00/00/00/00/00/1
chr3R12464089.ACTACAACTACAACTACATGTCATCATTGAATGGATTTTGATACCGATTTTAACTTGCATATAAACAAAAACAAGAACTAGACAACGTGAAGAGATTTTAAACAAAATTCTCCCTCGGTCACTACAACTACAACTACATGTCATCATTAAATGGATTTTGATACCGATTTTAACTTGCATATAAACAAAAACAAGAACTAGACAACGTGAAGAGATTTTAAACAAAATTCTCCCTCGGTC,TT.PASSAC=69,1GT0/00/00/00/00/01/01/11/11/10/01/01/10/00/01/10/00/00/00/01/10/00/00/01/10/00/00/01/00/00/00/00/01/11/11/10/00/00/01/11/11/10/00/00/01/10/00/00/01/10/00/00/00/00/01/10/00/01/00/01/11/10/00/01/10/00/10/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/10/01/00/01/10/00/02/00/11/10/01/10/00/00/01/10/00/00/01/00/00/00/01/00/01/10/00/01/11/10/01/10/10/00/00/00/00/00/01/10/01/10/01/11/11/11/10/01/10/01/10/00/01/00/01/11/11/10/00/00/00/01/10/01/11/10/00/01/11/10/00/00/00/00/00/00/00/01/11/10/00/00/00/01/11/10/00/00/00/01/10/00/01/10/00/00/00/00/00/01/10/01/10/00/01/10/00/10/00/00/01/11/00/00/01/11/00/00/00/00/00/00/00/0
chr3R12462319.AG.PASSAC=140GT1/11/11/11/01/10/10/01/10/01/10/10/01/11/11/11/01/10/01/10/01/10/01/10/01/11/11/11/01/10/01/11/10/00/00/01/11/11/11/10/00/01/11/11/10/00/01/11/10/01/11/10/01/11/10/01/11/11/01/10/00/01/01/10/01/11/01/11/11/01/11/11/11/11/11/10/01/11/11/11/11/10/01/10/10/00/01/11/10/00/10/01/10/01/11/11/11/11/11/11/10/11/11/11/10/11/10/01/11/10/00/01/10/00/10/01/11/11/11/11/10/00/00/01/10/00/00/00/01/10/00/00/01/11/10/11/10/00/01/11/11/11/11/10/01/10/00/01/10/00/00/00/01/11/11/11/11/11/11/10/00/01/11/11/11/10/00/01/11/11/11/11/11/11/10/01/11/11/11/11/11/10/01/10/01/11/10/01/10/01/11/10/00/00/01/11/10/01/11/11/11/11/11/11/11/1
chr3R12461104.TCCCC,CG,GG,TCA,TCG,TTC,TTG.PASSAC=3,3,1,11,109,20,1GT5/55/55/55/05/50/40/00/00/05/54/10/05/55/50/00/05/50/05/50/05/50/04/40/05/55/55/50/02/36/65/55/50/00/00/05/55/52/50/00/00/05/55/54/40/00/05/55/00/06/65/50/06/55/50/05/55/54/05/50/00/05/05/50/05/55/15/55/55/55/56/06/65/56/66/60/05/55/55/55/06/60/06/00/50/00/06/65/50/00/50/05/50/05/56/76/55/56/56/65/50/55/56/56/50/26/50/05/55/50/00/05/50/00/40/05/55/55/55/50/00/00/00/05/50/00/00/00/05/50/05/00/00/45/50/55/50/00/00/05/55/15/55/50/00/00/00/05/50/00/00/00/05/55/55/45/56/55/55/50/00/05/04/45/55/00/00/05/55/55/54/50/05/55/50/05/56/65/55/55/55/50/05/50/00/05/50/05/00/05/56/50/00/00/05/55/50/00/55/50/05/55/55/55/55/4
chr3R12470135.TC.PASSAC=2GT0/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/10/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/10/00/00/00/00/00/00/00/00/00/00/0
chr3R12470135.TATATGTT,TAATATGT.PASSAC=1,31GT0/00/00/00/00/00/02/20/00/00/02/02/20/00/00/00/00/00/00/00/00/00/00/02/00/00/00/00/20/00/00/00/00/02/22/20/00/00/00/02/02/20/00/00/02/00/00/00/00/00/00/00/00/00/02/20/00/00/00/02/21/00/00/02/00/00/20/00/00/20/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/02/00/00/00/00/20/00/00/00/00/00/00/00/00/00/00/00/00/00/00/02/00/00/00/02/20/00/02/20/00/00/00/00/00/02/00/00/00/00/00/00/00/00/02/20/02/20/00/00/00/02/00/00/00/00/00/00/00/00/02/20/00/00/00/00/02/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/02/20/02/00/00/02/00/00/00/00/00/02/02/20/00/00/00/00/00/00/00/00/00/00/0

Sequences and list of disrupted MOTIFs around top 5 SNPs

ChrPositionSequenceMotifs
chr3R12465284ATATGCGAAACCAAGCAAACTATGGAAAACTGGAGTGCAAAAGAATATTAT
chr3R12464089AATCTAAATCACTCACGGCACACAACTACAACTACAACTACATGTCATCATNA
chr3R12462319GGACGTAAGTATAACACATTGGATACCAAGGGCTCAGTTGCTTCTCCTTTC
chr3R12461104ATTTCCAATTGTTGTATTTTTTTTTCCTAATTCTTTGTACTACTCCCAAAANA
chr3R12470135TAGATGCGGTAGAGACCGTGTGTGTATATGTATATGAAAACAGAGAAGCAGDmelanogaster-FlyFactorSurvey-Cf2.PB_SANGER_5_FBgn0000286 , Dmelanogaster-JASPAR_CORE-Cf2_II-MA0015.1
chr3R12470135TAGATGCGGTAGAGACCGTGTGTGTATATGTATATGAAAACAGAGAAGCAGNA