Reference allele is: Major

P-values for top 5 SNPs

PositionJointP68_specificP1012_sepecificP24_specificP
120908005.36816904762748e-070.4317189940125130.985010296016560.509076840542134
120897341.19040457557675e-050.6641876350591030.8970120774760880.386695741969136
120438124.40983537587959e-050.4919363614035470.4024220443062070.514523073701113
120438108.78338910703867e-050.4694424215025990.2955123774901230.472512324059958
121103930.0001326239480256630.6978458915811270.531983554081050.665207609023812

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
chr3R12090800.TG.PASSAC=89GT0/00/01/10/00/01/10/01/11/10/01/11/10/00/00/00/00/01/10/01/10/01/01/11/10/00/00/01/11/10/00/01/10/00/00/00/00/01/10/01/10/00/01/10/01/11/11/11/11/10/00/00/01/10/01/10/00/01/10/00/01/10/00/00/01/11/10/01/10/11/11/11/11/10/00/00/00/00/00/01/00/10/00/01/10/00/00/00/00/00/11/10/01/10/00/01/10/01/11/11/10/00/01/11/11/11/11/10/00/01/10/01/11/01/11/10/00/01/11/10/00/00/01/10/00/01/10/01/10/00/01/01/10/10/00/01/11/11/11/10/01/00/10/01/11/10/01/10/00/00/00/00/00/00/00/11/10/01/11/10/01/10/01/10/01/10/00/00/01/11/11/10/00/00/01/10/00/01/10/00/00/00/00/00/00/00/00/00/00/01/10/00/00/00/00/10/00/01/10/00/01/11/00/00/01/1
chr3R12089733.AAA.PASSAC=4GT0/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/10/01/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/0
chr3R12089734.AAA.PASSAC=89GT0/00/01/00/00/01/00/00/01/00/01/01/10/00/00/00/00/00/00/01/00/00/01/01/10/01/00/01/11/00/00/01/00/00/00/00/00/00/00/01/00/00/01/10/00/01/10/11/01/00/01/00/01/00/01/00/00/01/00/00/01/00/00/00/01/11/00/01/00/00/10/00/00/00/00/00/01/01/10/00/10/00/01/00/10/00/00/01/01/00/00/00/01/01/00/01/01/00/01/01/00/00/01/11/10/11/00/00/00/11/01/01/00/11/01/00/01/10/00/00/00/00/01/00/00/01/01/01/00/00/00/11/00/01/00/01/01/01/01/00/00/11/00/01/01/10/01/00/10/00/00/00/00/00/00/11/00/01/01/00/01/00/01/00/01/00/00/00/00/11/01/00/00/00/01/00/00/11/00/00/00/00/00/00/00/01/00/01/00/01/00/00/00/00/00/00/00/00/00/00/01/01/00/00/10/1
chr3R12043812.TG.PASSAC=70GT0/00/01/11/00/01/01/11/11/10/00/00/00/00/00/00/00/00/00/01/11/11/10/00/01/10/00/00/00/00/00/00/00/01/10/00/00/00/00/01/10/10/01/10/00/00/00/00/01/11/10/00/01/10/00/00/00/00/11/11/10/00/00/00/01/10/00/00/00/11/10/00/01/10/00/00/00/00/00/00/00/00/01/11/01/10/00/00/00/00/01/10/01/11/10/01/10/01/11/10/01/00/01/11/10/01/11/10/00/01/11/11/10/00/00/01/10/01/11/10/01/10/01/10/01/11/11/11/10/00/01/01/11/11/10/10/01/11/11/10/00/00/00/00/00/01/11/10/00/00/01/10/00/00/01/10/00/00/00/00/00/00/00/00/00/01/10/00/00/00/00/00/00/00/01/10/00/01/10/01/10/00/00/00/00/00/00/00/00/11/10/00/00/01/10/00/00/00/00/00/00/00/00/00/00/1
chr3R12043810.GA.PASSAC=70GT0/00/01/11/00/01/01/11/11/10/00/00/00/00/00/00/00/00/00/01/11/11/10/00/01/10/00/00/00/00/00/00/00/01/10/00/00/00/00/01/10/10/01/00/00/00/00/00/01/11/10/00/01/10/00/00/00/00/11/11/10/00/00/00/01/10/00/00/00/11/00/00/01/10/00/00/00/00/00/00/00/00/01/11/01/10/00/00/00/00/01/10/01/11/10/01/10/01/11/10/01/00/01/11/10/01/01/10/00/01/11/11/10/00/00/01/10/01/11/10/01/10/01/10/01/11/11/11/10/00/01/01/11/11/10/10/01/11/11/10/00/00/00/00/00/01/11/10/00/00/01/10/00/00/01/10/00/00/00/00/00/00/00/00/00/01/10/00/00/00/00/00/00/00/01/10/00/01/10/01/10/00/00/00/00/00/00/00/00/11/10/00/00/01/10/00/00/00/00/00/00/00/00/00/00/1
chr3R12110393.GT.PASSAC=41GT0/00/00/00/00/01/00/00/01/10/00/00/00/00/00/00/00/01/10/01/10/00/00/01/10/00/00/01/00/00/00/01/10/00/00/00/00/00/00/00/00/00/01/10/00/00/00/01/10/00/00/00/01/10/00/00/00/00/10/00/00/00/00/00/01/11/00/01/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/00/00/00/00/00/00/00/00/01/10/00/00/00/00/00/00/00/00/00/00/01/00/00/00/00/01/10/00/01/10/11/10/00/01/10/00/00/00/01/10/00/01/10/01/10/00/00/10/00/00/00/01/10/01/11/10/00/00/00/00/00/00/01/10/00/00/00/00/00/01/10/01/00/01/10/00/00/00/00/00/00/00/00/00/01/01/10/10/00/00/00/00/00/01/10/00/00/00/00/00/00/00/00/00/00/01/10/00/00/00/00/00/00/00/00/00/01/11/00/00/01/0

Sequences and list of disrupted MOTIFs around top 5 SNPs

ChrPositionSequenceMotifs
chr3R12090800CCTGCTCAAGATATCGCCGCTGCTTGATGTCGAGATCCACACAGTCAGTGC
chr3R12089733TTCACTCAGTGTATGGGAAAAAAAAACAATCTAGAAAATATTATGAAATTTDmelanogaster-FlyFactorSurvey-hb_NAR_FBgn0001180 , Dmelanogaster-FlyFactorSurvey-jim_F1.9_SOLEXA_2.5_FBgn0027339 , Dmelanogaster-FlyFactorSurvey-jim_SANGER_2.5_FBgn0027339 , Dmelanogaster-FlyFactorSurvey-sqz_SOLEXA_5_FBgn0010768
chr3R12089734TCACTCAGTGTATGGGAAAAAAAAACAATCTAGAAAATATTATGAAATTTADmelanogaster-FlyFactorSurvey-CG2052_SOLEXA_2.5_FBgn0039905 , Dmelanogaster-FlyFactorSurvey-jim_F1.9_SOLEXA_2.5_FBgn0027339 , Dmelanogaster-FlyFactorSurvey-rn_SANGER_10_FBgn0259172 , Dmelanogaster-FlyFactorSurvey-sqz_SOLEXA_5_FBgn0010768
chr3R12043812AAAAGGAGGTGGTGGGTGGCTGGTTGGTGGTGGCTTGAGGTTGGGTGATGCDmelanogaster-FlyFactorSurvey-CG7368_SOLEXA_2.5_FBgn0036179 , Dmelanogaster-FlyFactorSurvey-l(3)neo38_SANGER_2.5_FBgn0086910 , Dmelanogaster-FlyFactorSurvey-luna_SANGER_5_FBgn0040765 , Dmelanogaster-FlyFactorSurvey-sr_SOLEXA_5_FBgn0003499
chr3R12043810ACAAAAGGAGGTGGTGGGTGGCTGGTTGGTGGTGGCTTGAGGTTGGGTGATDmelanogaster-FlyFactorSurvey-l(3)neo38_SANGER_2.5_FBgn0086910
chr3R12110393TACTAGTTTGCTTAGAAACGGCCGGACGGAAGGGGACGGACGAAGAGTCCTDmelanogaster-FlyFactorSurvey-pad_SOLEXA_5_FBgn0038418