Reference allele is: Major

P-values for top 5 SNPs

PositionJointP68_specificP1012_sepecificP24_specificP
64965765.02642507713695e-090.5744793292570350.01687429502805180.118901286268275
64964842.77584909938345e-070.8150272673345940.04299257894435980.0843691216875477
64965544.11211417743638e-070.4748305097190810.01997626039732780.0738561797243932
64966614.23764185539167e-070.7587128508575370.1262097253302370.0506828119706819
64962426.73730169740417e-070.4898499201880460.35917648179710.748681634876207

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
chrX6496576.GA.PASSAC=74GT0/00/00/00/00/01/11/10/01/11/10/00/00/00/01/10/00/00/01/10/01/11/10/01/11/11/10/00/00/01/10/00/00/01/10/01/11/10/00/01/10/01/11/10/00/00/00/00/00/01/10/01/10/00/00/00/00/00/00/00/00/00/00/01/11/10/01/10/00/01/10/01/10/01/11/10/01/11/10/00/01/11/10/01/10/00/00/01/11/10/00/00/01/11/11/11/10/00/00/00/01/11/10/00/00/00/00/00/01/11/11/10/00/01/10/01/10/01/11/10/00/01/11/10/01/10/00/00/00/00/00/00/00/01/10/01/10/00/00/01/10/01/10/00/01/10/00/00/00/00/00/00/00/00/00/00/00/01/11/11/10/01/10/01/11/11/10/01/10/01/11/11/11/10/01/10/00/00/00/00/00/00/01/10/01/10/00/00/00/00/00/00/00/00/01/10/01/11/10/00/01/10/00/00/00/0
chrX6496484.CA.PASSAC=78GT0/00/00/00/00/01/11/10/01/11/10/00/01/10/01/10/00/00/01/10/01/11/10/01/11/11/10/00/00/01/10/00/00/01/10/01/11/10/00/01/10/01/11/10/00/00/00/00/01/11/10/01/10/00/00/00/00/00/00/00/00/00/00/01/11/10/01/10/00/01/10/01/10/01/11/10/01/11/10/00/01/11/10/01/10/00/00/01/11/10/00/00/00/01/11/11/10/00/00/00/01/11/10/00/00/00/00/00/01/11/11/10/00/01/11/11/10/01/11/10/01/11/11/10/00/00/00/00/01/10/00/00/00/01/10/01/10/00/00/01/10/01/11/10/01/10/00/00/00/00/00/00/00/00/00/00/00/01/11/11/10/01/10/01/11/11/10/01/10/01/11/11/11/10/01/10/00/00/00/00/00/00/01/10/01/10/01/10/00/00/00/00/00/00/01/10/01/10/00/00/01/10/00/00/00/0
chrX6496554.TTTT,TTTT,TTTTTTT.PASSAC=4,64,1GT0/00/00/00/00/02/00/20/02/02/00/00/00/00/00/00/00/00/02/20/00/22/00/00/02/30/20/00/00/00/00/00/00/02/20/02/22/00/00/00/20/00/02/00/00/00/00/00/00/00/20/00/20/00/00/00/00/00/00/00/00/00/00/00/20/20/00/20/00/02/00/00/20/00/20/00/02/12/00/00/00/20/20/00/20/00/00/00/20/00/00/00/00/20/00/20/00/00/00/00/00/02/00/00/00/00/00/00/00/00/02/00/00/00/20/02/00/00/02/00/00/00/20/00/00/20/00/00/00/00/00/00/00/02/00/00/20/00/00/00/20/00/20/00/02/00/00/00/00/00/00/00/00/00/02/12/00/00/20/20/20/00/20/00/20/22/00/02/00/00/20/22/02/00/02/00/00/00/00/00/00/00/00/20/02/00/01/20/00/00/00/00/00/00/00/20/02/00/20/00/01/20/00/00/00/0
chrX6496659.TTTT.PASSAC=3GT0/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/10/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/10/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/0
chrX6496661.TTT.PASSAC=64GT0/00/00/00/00/01/01/00/01/01/00/00/00/00/00/00/00/00/01/10/01/11/00/00/01/01/00/00/00/00/00/00/00/01/00/01/01/00/00/01/00/00/01/10/00/00/00/00/00/01/00/01/00/00/00/00/00/00/00/00/00/00/00/01/01/10/01/00/00/01/00/00/10/01/01/00/11/01/00/00/01/11/00/01/00/00/00/01/00/00/00/00/00/01/10/00/00/00/00/00/00/11/00/00/00/00/00/00/00/00/01/00/00/01/00/01/00/00/01/00/00/01/00/01/00/00/00/00/00/00/00/10/00/01/10/11/00/00/00/01/00/01/00/00/00/10/00/00/00/00/00/00/00/00/00/00/00/01/01/01/00/01/00/01/01/01/00/01/10/01/01/01/01/00/01/00/00/00/00/00/00/00/01/10/01/00/01/00/00/00/00/00/00/00/00/00/01/00/00/00/01/00/00/00/00/0
chrX6496242.CT.PASSAC=65GT0/00/00/00/00/01/11/10/01/11/11/10/00/00/00/00/00/00/00/00/00/00/00/00/01/11/10/00/00/01/10/00/00/01/10/01/11/10/00/01/10/01/11/10/00/00/00/00/01/11/10/01/10/01/11/11/10/00/00/00/00/00/00/01/11/10/01/11/10/01/10/01/10/00/00/00/01/11/10/00/00/01/10/01/10/00/00/01/11/10/00/00/00/00/01/11/10/00/00/00/01/11/10/00/00/00/00/00/01/11/11/00/00/01/11/11/10/01/11/10/01/11/11/10/00/00/00/00/01/10/00/00/00/01/10/00/00/00/00/00/00/01/10/00/00/00/00/00/00/00/00/00/00/00/00/00/00/00/01/11/10/01/10/01/11/11/10/01/10/00/00/01/11/11/10/00/00/00/00/00/00/00/01/10/01/10/00/00/00/00/00/00/00/00/01/10/00/01/10/00/01/10/00/00/00/0

Sequences and list of disrupted MOTIFs around top 5 SNPs

ChrPositionSequenceMotifs
chrX6496576GTTGTGTCTTTTTTGTTGTTCGGCGTTTAGTGATTTCAACCTGTGTGTGGT
chrX6496484CACGAACATCCGAACATCCTGTGCCACTATAATTCCCAATTTCCCCGCTTC
chrX6496554TGCTAGCATACTATTTTTTTTTGTTGTGTCTTTTTTGTTGTTCGGCGTTTADmelanogaster-FlyFactorSurvey-CG2052_SANGER_2.5_FBgn0039905 , Dmelanogaster-FlyFactorSurvey-CG2052_SOLEXA_2.5_FBgn0039905 , Dmelanogaster-FlyFactorSurvey-CG6276_SANGER_5_FBgn0038316 , Dmelanogaster-FlyFactorSurvey-rn_SANGER_10_FBgn0259172 , Dmelanogaster-FlyFactorSurvey-rn_SOLEXA_5_FBgn0259172 , Dmelanogaster-FlyFactorSurvey-sqz_SANGER_5_FBgn0010768 , Dmelanogaster-FlyFactorSurvey-sqz_SOLEXA_5_FBgn0010768
chrX6496659TTTTGGCATCGCTGTCGTTTTTTTTTTTGTAGCACACTTACCGTTATAATANA
chrX6496661TTGGCATCGCTGTCGTTTTTTTTTTTGTAGCACACTTACCGTTATAATAATDmelanogaster-FlyFactorSurvey-CG2052_SOLEXA_2.5_FBgn0039905 , Dmelanogaster-FlyFactorSurvey-jim_F1.9_SOLEXA_2.5_FBgn0027339 , Dmelanogaster-FlyFactorSurvey-rn_SANGER_10_FBgn0259172 , Dmelanogaster-FlyFactorSurvey-sqz_SANGER_5_FBgn0010768 , Dmelanogaster-FlyFactorSurvey-sqz_SOLEXA_5_FBgn0010768
chrX6496242TTCTGCTGCTTCTTTCGTCCTTTTCGATTCTCTCCTGGAATCGTAATAGTTDmelanogaster-JASPAR_2014-pan-MA0237.2