DGRPool

GWAS results were computed on dm3 genome.

If you want to make an independent analysis with DGRP2 or PLINK2, you can find here prepared input files for this phenotype: DGRP2 results PLINK2 results

Full results

Phenotype distribution and association to known covariates

Shapiro-Wilk test of normality (p-value=5.345e^-4)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

We tested for association of this phenotype with 6 known covariates Huang et al., 2014 using both ANOVA and Kruskal-Wallis association tests.

ANOVA test
No significant result.

Kruskal-Wallis test
No significant result.

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2709 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

We performed a gene enrichment calculation (Fisher's exact test) of all GWAS-associated genes at p < 0.001. Genesets were taken from two database: the Gene Ontology (GO) and the FlyBase phenotypes. GO enrichment FlyBase phenotype enrichment

Variant impact HIGH MODERATE LOW MODIFIER

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Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
2L	21936726	2L_21936726_SNP [dm3] 2L_21936726_SNP [dm6]	G	A	9.852e^-8	0.185	INTERGENIC	transposable element FlyBase
2L	21732411	2L_21732411_SNP [dm3] 2L_21732411_SNP [dm6]	T	C	2.586e^-7	0.227	INTERGENIC	transposable element FlyBase
2L	21614283	2L_21614283_SNP [dm3] 2L_21614283_SNP [dm6]	G	A	4.323e^-7	0.227	UTR_3_PRIME CG2201 DOWNSTREAM CG2201
3R	17682853	3R_17682853_SNP [dm3] 3R_21857131_SNP [dm6]	A	G	4.836e^-7	0.227	UPSTREAM glec INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_Trl
2L	21842439	2L_21842439_SNP [dm3] 2L_21842439_SNP [dm6]	G	A	6.333e^-7	0.238	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
3R	10378520	3R_10378520_SNP [dm3] 3R_14552798_SNP [dm6]	T	C	7.993e^-7	0.25	INTRON Pde6
2L	21824030	2L_21824030_SNP [dm3] 2L_21824030_SNP [dm6]	C	G	1.097e^-6	0.28	INTERGENIC
2R	13205979	2R_13205979_SNP [dm3] 2R_17318474_SNP [dm6]	C	A	1.194e^-6	0.28	INTRON mbl
2L	22038981	2L_22038981_SNP [dm3] 2L_22038981_SNP [dm6]	A	T	1.431e^-6	0.298	INTRON CG41434
3R	11665139	3R_11665139_SNP [dm3] 3R_15839417_SNP [dm6]	A	G	2.076e^-6	0.386	UTR_5_PRIME Pbp45 INTRON spn-E	TF binding site mE1_TFBS_cad
3R	17682885	3R_17682885_SNP [dm3] 3R_21857163_SNP [dm6]	A	T	2.479e^-6	0.386	UPSTREAM glec INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_Trl
2L	22063027	2L_22063027_SNP [dm3] 2L_22063027_SNP [dm6]	C	T	2.561e^-6	0.386	INTERGENIC
3R	4369107	3R_4369107_SNP [dm3] 3R_8543385_SNP [dm6]	T	G	2.676e^-6	0.386	INTERGENIC
2L	21953133	2L_21953133_SNP [dm3] 2L_21953133_SNP [dm6]	T	C	2.969e^-6	0.398	INTERGENIC	TF binding site mE1_TFBS_cad
2L	22063032	2L_22063032_SNP [dm3] 2L_22063032_SNP [dm6]	C	A	3.252e^-6	0.407	INTERGENIC
2L	1081512	2L_1081512_SNP [dm3] 2L_1081512_SNP [dm6]	C	T	3.670e^-6	0.413	DOWNSTREAM ast INTRON Atg4a
2L	21912388	2L_21912388_SNP [dm3] 2L_21912388_SNP [dm6]	G	A	4.279e^-6	0.413	INTERGENIC	transposable element FlyBase
X	14241937	X_14241937_SNP [dm3] X_14347904_SNP [dm6]	T	A	4.413e^-6	0.413	INTRON dpr8
X	14241965	X_14241965_SNP [dm3] X_14347932_SNP [dm6]	T	A	4.982e^-6	0.413	INTRON dpr8
3R	4045070	3R_4045070_SNP [dm3] 3R_8219348_SNP [dm6]	T	A	5.013e^-6	0.413	NON_SYNONYMOUS_CODING CG7800 UPSTREAM CG18249
3R	10975535	3R_10975535_SNP [dm3] 3R_15149813_SNP [dm6]	T	C	5.060e^-6	0.413	UPSTREAM Gyc88E INTERGENIC
2L	21812733	2L_21812733_SNP [dm3] 2L_21812733_SNP [dm6]	C	T	5.237e^-6	0.413	INTERGENIC
2L	10104398	2L_10104398_SNP [dm3] 2L_10104398_SNP [dm6]	C	T	5.239e^-6	0.413	INTRON CG44153 & 1 other
2L	21914642	2L_21914642_SNP [dm3] 2L_21914642_SNP [dm6]	A	C	5.864e^-6	0.413	NON_SYNONYMOUS_CODING CG31600
3R	19288847	3R_19288847_SNP [dm3] 3R_23463125_SNP [dm6]	C	T	6.146e^-6	0.413	INTRON CG4374
2L	13107278	2L_13107278_SNP [dm3] 2L_13107278_SNP [dm6]	T	C	6.531e^-6	0.413	SPLICE_SITE_REGION CG5142 INTRON CG5142	TF binding site mE1_TFBS_chinmo
2L	21807317	2L_21807317_SNP [dm3] 2L_21807317_SNP [dm6]	C	T	6.774e^-6	0.413	INTERGENIC
X	14241970	X_14241970_SNP [dm3] X_14347937_SNP [dm6]	G	C	6.962e^-6	0.413	INTRON dpr8
X	7279914	X_7279914_SNP [dm3] X_7385881_SNP [dm6]	C	T	7.947e^-6	0.413	INTRON CG1677 & 1 other
X	14950502	X_14950502_SNP [dm3] X_15056469_SNP [dm6]	T	A	8.710e^-6	0.413	SPLICE_SITE_REGION hiw INTRON hiw	TF binding site mE1_TFBS_chinmo
3R	10796547	3R_10796547_SNP [dm3] 3R_14970825_SNP [dm6]	C	T	8.814e^-6	0.413	INTERGENIC
2R	12857159	2R_12857159_SNP [dm3] 2R_16969654_SNP [dm6]	A	T	9.405e^-6	0.413	EXON CR44377
2L	21837609	2L_21837609_SNP [dm3] 2L_21837609_SNP [dm6]	T	A	9.587e^-6	0.413	DOWNSTREAM tsh INTERGENIC
3R	14998359	3R_14998359_SNP [dm3] 3R_19172637_SNP [dm6]	A	G	9.798e^-6	0.413	INTERGENIC
2L	6121812	2L_6121812_SNP [dm3] 2L_6121812_SNP [dm6]	T	C	9.902e^-6	0.413	SYNONYMOUS_CODING stai
3L	9187589	3L_9187589_SNP [dm3] 3L_9194489_SNP [dm6]	G	A	1.013e^-5	0.413	INTERGENIC
3L	9298307	3L_9298307_SNP [dm3] 3L_9305207_SNP [dm6]	G	T	1.084e^-5	0.413	INTERGENIC
X	5671591	X_5671591_SNP [dm3] X_5777558_SNP [dm6]	A	G	1.130e^-5	0.413	SYNONYMOUS_CODING CG3108 UPSTREAM CG42264 INTRON CG42699	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	12829815	3L_12829815_SNP [dm3] 3L_12836715_SNP [dm6]	T	C	1.131e^-5	0.413	INTRON CG10960	TF binding site mE1_TFBS_cad mE1_TFBS_HSA
2L	13954266	2L_13954266_SNP [dm3] 2L_13954266_SNP [dm6]	G	A	1.163e^-5	0.413	INTRON Ance-3
2L	21869148	2L_21869148_SNP [dm3] 2L_21869148_SNP [dm6]	T	C	1.181e^-5	0.413	DOWNSTREAM CR44920 INTRON CR44917 EXON CR44917	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	22013641	2L_22013641_SNP [dm3] 2L_22013641_SNP [dm6]	T	A	1.183e^-5	0.413	INTERGENIC
2L	21933691	2L_21933691_SNP [dm3] 2L_21933691_SNP [dm6]	T	C	1.229e^-5	0.413	INTERGENIC
3L	16746853	3L_16746853_INS [dm3] 3L_16753753_INS [dm6]	T	TTCTGCCT	1.298e^-5	0.413	INTERGENIC	TF binding site mE1_TFBS_cad
X	16767345	X_16767345_SNP [dm3] X_16873312_SNP [dm6]	G	T	1.365e^-5	0.413	INTRON CG13003
3R	14960640	3R_14960640_SNP [dm3] 3R_19134918_SNP [dm6]	T	A	1.401e^-5	0.413	UPSTREAM Cyp12a4 DOWNSTREAM Cyp12a5 INTERGENIC
2L	22038979	2L_22038979_SNP [dm3] 2L_22038979_SNP [dm6]	T	A	1.410e^-5	0.413	INTRON CG41434
3R	10796751	3R_10796751_SNP [dm3] 3R_14971029_SNP [dm6]	A	C	1.425e^-5	0.413	INTERGENIC
3R	5700180	3R_5700180_SNP [dm3] 3R_9874458_SNP [dm6]	C	T	1.435e^-5	0.413	UPSTREAM Glut4EF INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_zfh1
2L	21874135	2L_21874135_SNP [dm3] 2L_21874135_SNP [dm6]	C	T	1.442e^-5	0.413	INTERGENIC
3L	6747645	3L_6747645_SNP [dm3] 3L_6754545_SNP [dm6]	A	G	1.484e^-5	0.413	DOWNSTREAM CG10103 & 1 other INTRON CG10103	TF binding site mE1_TFBS_cad
3L	6747783	3L_6747783_SNP [dm3] 3L_6754683_SNP [dm6]	T	C	1.484e^-5	0.413	DOWNSTREAM CG10103 & 1 other INTRON CG10103	TF binding site mE1_TFBS_cad
3L	6747848	3L_6747848_SNP [dm3] 3L_6754748_SNP [dm6]	G	C	1.484e^-5	0.413	SYNONYMOUS_CODING CG10103 DOWNSTREAM CG10103 & 1 other INTRON CG10103	TF binding site mE1_TFBS_cad
3L	6747660	3L_6747660_SNP [dm3] 3L_6754560_SNP [dm6]	C	A	1.484e^-5	0.413	DOWNSTREAM CG10103 & 1 other INTRON CG10103	TF binding site mE1_TFBS_cad
3L	5944949	3L_5944949_SNP [dm3] 3L_5951849_SNP [dm6]	A	G	1.496e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
3R	14960436	3R_14960436_SNP [dm3] 3R_19134714_SNP [dm6]	G	C	1.501e^-5	0.413	UPSTREAM Cyp12a4 DOWNSTREAM Cyp12a5 INTERGENIC
2L	21904830	2L_21904830_SNP [dm3] 2L_21904830_SNP [dm6]	G	T	1.508e^-5	0.413	INTERGENIC
X	11727403	X_11727403_SNP [dm3] X_11833370_SNP [dm6]	A	T	1.527e^-5	0.413	UTR_3_PRIME rudhira INTRON rudhira
2L	15487323	2L_15487323_SNP [dm3] 2L_15487323_SNP [dm6]	A	C	1.552e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	21911070	2L_21911070_SNP [dm3] 2L_21911070_SNP [dm6]	T	C	1.599e^-5	0.413	INTERGENIC
2L	13249133	2L_13249133_SNP [dm3] 2L_13249133_SNP [dm6]	T	C	1.626e^-5	0.413	NON_SYNONYMOUS_CODING CG16820
3L	6750666	3L_6750666_SNP [dm3] 3L_6757566_SNP [dm6]	C	T	1.635e^-5	0.413	SYNONYMOUS_CODING CG32392	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
3L	6750678	3L_6750678_SNP [dm3] 3L_6757578_SNP [dm6]	T	C	1.635e^-5	0.413	SYNONYMOUS_CODING CG32392	TF binding site mE1_TFBS_cad mE1_TFBS_chinmo
2L	13237887	2L_13237887_INS [dm3] 2L_13237887_INS [dm6]	T	TT	1.650e^-5	0.413	INTRON CG5867
2L	21968495	2L_21968495_SNP [dm3] 2L_21968495_SNP [dm6]	G	T	1.668e^-5	0.413	INTERGENIC
X	16767443	X_16767443_SNP [dm3] X_16873410_SNP [dm6]	G	T	1.733e^-5	0.413	INTRON CG13003
X	20011962	X_20011962_SNP [dm3] X_20117929_SNP [dm6]	G	C	1.735e^-5	0.413	INTERGENIC
3R	5700061	3R_5700061_SNP [dm3] 3R_9874339_SNP [dm6]	T	C	1.737e^-5	0.413	UPSTREAM Glut4EF INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_hb BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_sna BDTNP1_TFBS_twi BDTNP1_TFBS_z mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_h mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl mE1_TFBS_zfh1
2R	16435708	2R_16435708_SNP [dm3] 2R_20548203_SNP [dm6]	G	A	1.739e^-5	0.413	UPSTREAM CG30148 DOWNSTREAM Cpr57A & 1 other INTRON Obp57e
2L	5022356	2L_5022356_SNP [dm3] 2L_5022356_SNP [dm6]	G	C	1.752e^-5	0.413	INTRON vkg
2L	21817966	2L_21817966_SNP [dm3] 2L_21817966_SNP [dm6]	C	T	1.755e^-5	0.413	INTERGENIC
3R	17682926	3R_17682926_SNP [dm3] 3R_21857204_SNP [dm6]	C	T	1.799e^-5	0.413	UPSTREAM glec INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_cnc mE1_TFBS_HSA mE1_TFBS_Trl
2L	21924263	2L_21924263_SNP [dm3] 2L_21924263_SNP [dm6]	A	T	1.864e^-5	0.413	INTERGENIC
X	16767354	X_16767354_SNP [dm3] X_16873321_SNP [dm6]	G	A	1.895e^-5	0.413	INTRON CG13003
2L	21810663	2L_21810663_SNP [dm3] 2L_21810663_SNP [dm6]	G	C	1.910e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	21868444	2L_21868444_SNP [dm3] 2L_21868444_SNP [dm6]	A	G	1.919e^-5	0.413	UPSTREAM CR44919 DOWNSTREAM CR44917 INTRON CR44917	silencer mE1_HDAC_PRE TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_Trl
2L	22306995	2L_22306995_SNP [dm3] 2L_22306995_SNP [dm6]	T	A	1.968e^-5	0.413	INTERGENIC
X	7279863	X_7279863_SNP [dm3] X_7385830_SNP [dm6]	C	G	1.980e^-5	0.413	INTRON CG1677 & 1 other
2L	22094502	2L_22094502_SNP [dm3] 2L_22094502_SNP [dm6]	T	G	2.003e^-5	0.413	INTERGENIC
X	6631487	X_6631487_SNP [dm3] X_6737454_SNP [dm6]	T	C	2.019e^-5	0.413	INTRON CG3168
2L	21711463	2L_21711463_SNP [dm3] 2L_21711463_SNP [dm6]	C	T	2.082e^-5	0.413	INTRON CG31619
3R	7143370	3R_7143370_INS [dm3] 3R_11317648_INS [dm6]	C	CCCTGCTC	2.110e^-5	0.413	INTERGENIC
3L	5944943	3L_5944943_SNP [dm3] 3L_5951843_SNP [dm6]	G	A	2.115e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_prd BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA
2L	21866135	2L_21866135_SNP [dm3] 2L_21866135_SNP [dm6]	A	T	2.145e^-5	0.413	DOWNSTREAM CR44919 INTRON CR44917 EXON CR44918	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_cad mE1_TFBS_HSA mE1_TFBS_sens
X	16767329	X_16767329_SNP [dm3] X_16873296_SNP [dm6]	T	A	2.170e^-5	0.413	INTRON CG13003
3R	14960689	3R_14960689_SNP [dm3] 3R_19134967_SNP [dm6]	G	A	2.191e^-5	0.413	UPSTREAM Cyp12a4 DOWNSTREAM Cyp12a5 INTERGENIC
3R	399143	3R_399143_SNP [dm3] 3R_4573421_SNP [dm6]	G	T	2.265e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	21798476	2L_21798476_SNP [dm3] 2L_21798476_SNP [dm6]	T	C	2.282e^-5	0.413	EXON CR44269
2L	21813041	2L_21813041_SNP [dm3] 2L_21813041_SNP [dm6]	T	C	2.282e^-5	0.413	INTERGENIC	TF binding site mE1_TFBS_HSA
2L	21818297	2L_21818297_SNP [dm3] 2L_21818297_SNP [dm6]	G	C	2.282e^-5	0.413	INTERGENIC
2L	21824882	2L_21824882_SNP [dm3] 2L_21824882_SNP [dm6]	A	G	2.282e^-5	0.413	INTERGENIC
2L	21840432	2L_21840432_SNP [dm3] 2L_21840432_SNP [dm6]	G	A	2.282e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	21841744	2L_21841744_SNP [dm3] 2L_21841744_SNP [dm6]	T	A	2.282e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA mE1_TFBS_sens
2L	21842421	2L_21842421_SNP [dm3] 2L_21842421_SNP [dm6]	C	T	2.282e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
2L	21844719	2L_21844719_SNP [dm3] 2L_21844719_SNP [dm6]	G	A	2.282e^-5	0.413	INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi
2L	21848113	2L_21848113_SNP [dm3] 2L_21848113_SNP [dm6]	T	C	2.282e^-5	0.413	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_gt BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2L	14376264	2L_14376264_SNP [dm3] 2L_14376264_SNP [dm6]	G	C	2.330e^-5	0.413	INTERGENIC	TF binding site mE1_TFBS_zfh1
2L	21848438	2L_21848438_SNP [dm3] 2L_21848438_SNP [dm6]	T	C	2.339e^-5	0.413	INTERGENIC	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_Med BDTNP1_TFBS_sna BDTNP1_TFBS_twi mE1_TFBS_HSA
3L	6748544	3L_6748544_SNP [dm3] 3L_6755444_SNP [dm6]	C	T	2.380e^-5	0.413	SYNONYMOUS_CODING CG10103	TF binding site mE1_TFBS_cad
2L	21830043	2L_21830043_SNP [dm3] 2L_21830043_SNP [dm6]	G	C	2.389e^-5	0.413	INTRON tsh	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_twi

Showing 1 to 100 of 1,000 entries

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GWAS results were computed on dm3 genome.

If you want to make an independent analysis with DGRP2 or PLINK2, you can find here prepared input files for this phenotype: DGRP2 results PLINK2 results

Full results

Phenotype distribution and association to known covariates

Shapiro-Wilk test of normality (p-value=6.200e^-6)
Null Hypothesis is rejected (p<=0.05).
Interpretation: NOT NORMAL distribution of this phenotype

We tested for association of this phenotype with 6 known covariates Huang et al., 2014 using both ANOVA and Kruskal-Wallis association tests.

ANOVA test

Covariate	p-value	Significance
In_2L_t	0.0440795
In_3R_P	0.0471791
In_3R_K	0.0001474

Kruskal-Wallis test

Covariate	χ²	p-value	Significance
In_3R_K	18.3895	0.0001

PNG PDF

QQplot

PNG PDF

Manhattan plot

GWAS results

2228 significant hits at p-value < 0.001. The 1000 top results are displayed in the table below.

Variant impact HIGH MODERATE LOW MODIFIER

Show entries

Search:

Chromosome	Position	ID	Reference	Variant	p-value	FDR_BH	Transcript annotation	Binding site annotation
3L	9989668	3L_9989668_SNP [dm3] 3L_9996568_SNP [dm6]	A	G	2.430e^-7	0.192	INTRON dpr6
X	14219497	X_14219497_SNP [dm3] X_14325464_SNP [dm6]	A	G	2.508e^-7	0.192	INTRON dpr8
2L	4917163	2L_4917163_SNP [dm3] 2L_4917163_SNP [dm6]	T	A	3.067e^-7	0.192	INTRON hoe1
3L	9989811	3L_9989811_SNP [dm3] 3L_9996711_SNP [dm6]	G	A	6.807e^-7	0.249	INTRON dpr6
X	14209450	X_14209450_SNP [dm3] X_14315417_SNP [dm6]	T	G	8.307e^-7	0.249	UTR_5_PRIME betaNACtes2 DOWNSTREAM betaNACtes6
X	14217087	X_14217087_SNP [dm3] X_14323054_SNP [dm6]	G	C	8.485e^-7	0.249	INTRON dpr8	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl
X	14213020	X_14213020_SNP [dm3] X_14318987_SNP [dm6]	T	C	9.955e^-7	0.249	INTERGENIC
2L	8372098	2L_8372098_SNP [dm3] 2L_8372098_SNP [dm6]	G	A	1.060e^-6	0.249	UPSTREAM CG17292 INTRON CG17292
X	14209478	X_14209478_SNP [dm3] X_14315445_SNP [dm6]	G	A	1.404e^-6	0.293	DOWNSTREAM betaNACtes6 INTRON betaNACtes2
2L	8371979	2L_8371979_SNP [dm3] 2L_8371979_SNP [dm6]	A	G	1.682e^-6	0.315	UPSTREAM CG17292 INTRON CG17292
2L	8372130	2L_8372130_SNP [dm3] 2L_8372130_SNP [dm6]	C	T	2.135e^-6	0.315	UPSTREAM CG17292 INTRON CG17292
X	14219656	X_14219656_SNP [dm3] X_14325623_SNP [dm6]	C	G	2.225e^-6	0.315	INTRON dpr8
2L	4916296	2L_4916296_SNP [dm3] 2L_4916296_SNP [dm6]	C	A	2.331e^-6	0.315	UPSTREAM hoe1 INTRON hoe1
2R	3354774	2R_3354774_SNP [dm3] 2R_7467269_SNP [dm6]	A	G	2.385e^-6	0.315	UTR_3_PRIME Aldh-III UPSTREAM p47 INTRON Aldh-III	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
X	14211525	X_14211525_SNP [dm3] X_14317492_SNP [dm6]	G	C	2.683e^-6	0.315	UPSTREAM betaNACtes6 INTERGENIC
2R	3787145	2R_3787145_SNP [dm3] 2R_7899640_SNP [dm6]	G	A	2.904e^-6	0.315	INTRON CG30377
X	14214720	X_14214720_INS [dm3] X_14320687_INS [dm6]	G	GG	3.169e^-6	0.315	INTERGENIC
X	14213218	X_14213218_SNP [dm3] X_14319185_SNP [dm6]	C	A	3.212e^-6	0.315	INTERGENIC
3L	9989557	3L_9989557_SNP [dm3] 3L_9996457_SNP [dm6]	G	A	3.359e^-6	0.315	INTRON dpr6
X	14222910	X_14222910_SNP [dm3] X_14328877_SNP [dm6]	G	T	3.790e^-6	0.315	INTRON dpr8
3R	8220563	3R_8220563_SNP [dm3] 3R_12394841_SNP [dm6]	A	G	4.010e^-6	0.315	NON_SYNONYMOUS_CODING CG10097 UTR_5_PRIME CG10096 INTRON CG34402
2L	9387249	2L_9387249_SNP [dm3] 2L_9387249_SNP [dm6]	G	A	4.030e^-6	0.315	UPSTREAM Aldh INTRON Shawl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
2L	9387250	2L_9387250_SNP [dm3] 2L_9387250_SNP [dm6]	C	T	4.030e^-6	0.315	UPSTREAM Aldh INTRON Shawl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
2L	11200150	2L_11200150_SNP [dm3] 2L_11200150_SNP [dm6]	C	T	4.034e^-6	0.315	INTRON Ca-beta
X	14213277	X_14213277_SNP [dm3] X_14319244_SNP [dm6]	T	C	4.196e^-6	0.315	INTERGENIC
2L	9387252	2L_9387252_SNP [dm3] 2L_9387252_SNP [dm6]	T	G	4.541e^-6	0.328	UPSTREAM Aldh INTRON Shawl	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi
3R	25204555	3R_25204555_INS [dm3] 3R_29378833_INS [dm6]	C	CCTC	5.371e^-6	0.373	INTRON Ptp99A
X	14207794	X_14207794_SNP [dm3] X_14313761_SNP [dm6]	A	G	5.593e^-6	0.374	DOWNSTREAM betaNACtes2 INTERGENIC
3L	9989558	3L_9989558_SNP [dm3] 3L_9996458_SNP [dm6]	A	C	5.780e^-6	0.374	INTRON dpr6
3L	7452459	3L_7452459_SNP [dm3] 3L_7459359_SNP [dm6]	C	T	6.637e^-6	0.415	DOWNSTREAM ppk26 INTERGENIC
X	14217189	X_14217189_DEL [dm3] X_14323156_DEL [dm6]	TTAAAGTC	T	7.073e^-6	0.423	INTRON dpr8	TF binding site BDTNP1_TFBS_da
2L	10692811	2L_10692811_INS [dm3] 2L_10692811_INS [dm6]	G	GCGGTCG	7.288e^-6	0.423	DOWNSTREAM CG17108 INTERGENIC
3L	9989163	3L_9989163_SNP [dm3] 3L_9996063_SNP [dm6]	T	G	7.549e^-6	0.423	INTRON dpr6
2R	12476912	2R_12476912_SNP [dm3] 2R_16589407_SNP [dm6]	G	T	7.674e^-6	0.423	UPSTREAM CG8311 DOWNSTREAM CG8306 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
2R	5026100	2R_5026100_SNP [dm3] 2R_9138595_SNP [dm6]	T	C	7.926e^-6	0.425	UPSTREAM alc & 2 others INTRON CG8788 & 1 other	regulatory region REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_sens mE1_TFBS_Trl
2R	14882572	2R_14882572_SNP [dm3] 2R_18995067_SNP [dm6]	T	C	8.786e^-6	0.458	SYNONYMOUS_CODING tn DOWNSTREAM snoRNA:abba-a
3R	25204559	3R_25204559_SNP [dm3] 3R_29378837_SNP [dm6]	T	C	9.357e^-6	0.474	INTRON Ptp99A
X	14211941	X_14211941_DEL [dm3] X_14317908_DEL [dm6]	TTT	T	1.021e^-5	0.498	UPSTREAM betaNACtes6 INTERGENIC
2R	12476917	2R_12476917_SNP [dm3] 2R_16589412_SNP [dm6]	A	T	1.036e^-5	0.498	UPSTREAM CG8311 DOWNSTREAM CG8306 INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_bab1 mE1_TFBS_cad mE1_TFBS_HSA
X	14215331	X_14215331_SNP [dm3] X_14321298_SNP [dm6]	C	G	1.073e^-5	0.501	UPSTREAM dpr8 INTERGENIC
3R	23887526	3R_23887526_SNP [dm3] 3R_28061804_SNP [dm6]	G	C	1.094e^-5	0.501	INTRON CG34362
2L	4648562	2L_4648562_SNP [dm3] 2L_4648562_SNP [dm6]	A	G	1.158e^-5	0.517	DOWNSTREAM CG43798 INTERGENIC
2L	8372116	2L_8372116_SNP [dm3] 2L_8372116_SNP [dm6]	A	G	1.306e^-5	0.541	UPSTREAM CG17292 INTRON CG17292
2L	4648712	2L_4648712_SNP [dm3] 2L_4648712_SNP [dm6]	T	A	1.321e^-5	0.541	DOWNSTREAM CG43798 INTERGENIC	TF binding site BDTNP1_TFBS_twi
2L	4648720	2L_4648720_SNP [dm3] 2L_4648720_SNP [dm6]	G	A	1.321e^-5	0.541	DOWNSTREAM CG43798 INTERGENIC	TF binding site BDTNP1_TFBS_twi
X	14222884	X_14222884_INS [dm3] X_14328851_INS [dm6]	G	GTACAG	1.344e^-5	0.541	INTRON dpr8
2L	4917160	2L_4917160_SNP [dm3] 2L_4917160_SNP [dm6]	T	A	1.377e^-5	0.541	INTRON hoe1
3L	9989066	3L_9989066_SNP [dm3] 3L_9995966_SNP [dm6]	A	T	1.384e^-5	0.541	INTRON dpr6
2L	9252537	2L_9252537_SNP [dm3] 2L_9252537_SNP [dm6]	C	A	1.478e^-5	0.566	INTRON borr	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_twi mE1_TFBS_HSA
X	14681238	X_14681238_SNP [dm3] X_14787205_SNP [dm6]	A	C	1.522e^-5	0.571	UPSTREAM Ag5r DOWNSTREAM rut EXON CR45522
3L	22149333	3L_22149333_SNP [dm3] 3L_22156233_SNP [dm6]	C	A	1.710e^-5	0.613	INTRON olf413	TF binding site BDTNP1_TFBS_prd mE1_TFBS_HSA
2L	9485734	2L_9485734_SNP [dm3] 2L_9485734_SNP [dm6]	T	A	1.744e^-5	0.613	INTERGENIC
2L	11489119	2L_11489119_SNP [dm3] 2L_11489119_SNP [dm6]	A	G	1.770e^-5	0.613	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_HSA
3R	11902980	3R_11902980_SNP [dm3] 3R_16077258_SNP [dm6]	C	T	1.790e^-5	0.613	SYNONYMOUS_CODING Mhcl
2R	20221527	2R_20221527_SNP [dm3] 2R_24334004_SNP [dm6]	A	T	1.852e^-5	0.613	UTR_5_PRIME slbo DOWNSTREAM CR44282	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA
2R	20502199	2R_20502199_SNP [dm3] 2R_24614676_SNP [dm6]	C	T	1.854e^-5	0.613	UPSTREAM CG4741 DOWNSTREAM CG3608 & 1 other INTRON CG4741
3R	23887482	3R_23887482_SNP [dm3] 3R_28061760_SNP [dm6]	C	T	1.875e^-5	0.613	INTRON CG34362
2R	4217529	2R_4217529_SNP [dm3] 2R_8330024_SNP [dm6]	G	A	1.926e^-5	0.613	INTRON pdm3
3R	8214415	3R_8214415_SNP [dm3] 3R_12388693_SNP [dm6]	T	A	1.930e^-5	0.613	UTR_3_PRIME CG33098 UPSTREAM CG34402 DOWNSTREAM CG33098 INTRON CG34402
2R	11944816	2R_11944816_SNP [dm3] 2R_16057311_SNP [dm6]	A	G	2.031e^-5	0.635	NON_SYNONYMOUS_CODING CG8405	TF binding site BDTNP1_TFBS_da mE1_TFBS_cad mE1_TFBS_chinmo mE1_TFBS_HSA mE1_TFBS_inv
3R	19717241	3R_19717241_DEL [dm3] 3R_23891519_DEL [dm6]	TCGCAATCGCTTCCTTCTGC...	T	2.096e^-5	0.644	UPSTREAM TfIIA-S DOWNSTREAM tbrd-1 INTERGENIC	TF binding site BDTNP1_TFBS_Med mE1_TFBS_HSA transposable element FlyBase
2L	15736224	2L_15736224_DEL [dm3] 2L_15736224_DEL [dm6]	GG	G	2.195e^-5	0.652	INTRON CycE	regulatory region FlyBase REDfly_CRMs TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_twi mE1_TFBS_HSA
2L	11492250	2L_11492250_SNP [dm3] 2L_11492250_SNP [dm6]	T	C	2.219e^-5	0.652	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad
X	14217202	X_14217202_SNP [dm3] X_14323169_SNP [dm6]	G	A	2.259e^-5	0.652	INTRON dpr8	TF binding site BDTNP1_TFBS_da
3L	9977149	3L_9977149_SNP [dm3] 3L_9984049_SNP [dm6]	G	A	2.274e^-5	0.652	INTRON dpr6
2L	1029287	2L_1029287_SNP [dm3] 2L_1029287_SNP [dm6]	C	T	2.308e^-5	0.652	INTRON IA-2
X	14217152	X_14217152_SNP [dm3] X_14323119_SNP [dm6]	C	T	2.327e^-5	0.652	INTRON dpr8	TF binding site BDTNP1_TFBS_da
2L	7143208	2L_7143208_SNP [dm3] 2L_7143208_SNP [dm6]	T	A	2.375e^-5	0.653	INTRON Pvf3 EXON CR44612	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_twi mE1_TFBS_HSA
2R	6577634	2R_6577634_SNP [dm3] 2R_10690129_SNP [dm6]	G	C	2.498e^-5	0.653	INTRON stan
3R	6289143	3R_6289143_INS [dm3] 3R_10463421_INS [dm6]	T	CA	2.539e^-5	0.653	EXON CR44955
2R	16909729	2R_16909729_SNP [dm3] 2R_21022224_SNP [dm6]	C	A	2.582e^-5	0.653	INTRON RIC-3
X	14217419	X_14217419_SNP [dm3] X_14323386_SNP [dm6]	T	G	2.601e^-5	0.653	INTRON dpr8
3R	8214104	3R_8214104_SNP [dm3] 3R_12388382_SNP [dm6]	G	A	2.663e^-5	0.653	SYNONYMOUS_CODING CG33098 UTR_3_PRIME CG33098 UPSTREAM CG34402 INTRON CG34402	TF binding site mE1_TFBS_cad
2L	4929825	2L_4929825_SNP [dm3] 2L_4929825_SNP [dm6]	C	A	2.695e^-5	0.653	INTRON hoe1
3L	9989709	3L_9989709_SNP [dm3] 3L_9996609_SNP [dm6]	T	G	2.745e^-5	0.653	INTRON dpr6
2L	1092240	2L_1092240_SNP [dm3] 2L_1092240_SNP [dm6]	G	C	2.749e^-5	0.653	INTRON CG4629
X	14217307	X_14217307_SNP [dm3] X_14323274_SNP [dm6]	A	G	2.757e^-5	0.653	INTRON dpr8	TF binding site BDTNP1_TFBS_da
2L	11490486	2L_11490486_SNP [dm3] 2L_11490486_SNP [dm6]	T	C	2.791e^-5	0.653	INTERGENIC	TF binding site BDTNP1_TFBS_dl mE1_TFBS_cad
2L	12101939	2L_12101939_SNP [dm3] 2L_12101939_SNP [dm6]	A	G	2.874e^-5	0.653	SYNONYMOUS_CODING Patsas	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
2R	5025853	2R_5025853_SNP [dm3] 2R_9138348_SNP [dm6]	A	G	2.915e^-5	0.653	UPSTREAM alc & 2 others INTERGENIC	TF binding site BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_disco mE1_TFBS_HSA mE1_TFBS_Trl mE1_TFBS_Ubx
2L	7123671	2L_7123671_SNP [dm3] 2L_7123671_SNP [dm6]	C	T	2.934e^-5	0.653	INTRON Pvf3
2L	12102314	2L_12102314_SNP [dm3] 2L_12102314_SNP [dm6]	T	C	2.957e^-5	0.653	SYNONYMOUS_CODING Patsas	TF binding site mE1_TFBS_chinmo mE1_TFBS_sens
3R	18156237	3R_18156237_SNP [dm3] 3R_22330515_SNP [dm6]	G	A	2.958e^-5	0.653	UTR_3_PRIME CG7080 UPSTREAM CG33721	TF binding site mE1_TFBS_cad
2L	7123663	2L_7123663_SNP [dm3] 2L_7123663_SNP [dm6]	A	C	2.976e^-5	0.653	INTRON Pvf3
2L	11494675	2L_11494675_SNP [dm3] 2L_11494675_SNP [dm6]	G	A	2.983e^-5	0.653	INTERGENIC
X	14216893	X_14216893_SNP [dm3] X_14322860_SNP [dm6]	C	T	2.994e^-5	0.653	UTR_5_PRIME dpr8	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl mE1_TFBS_HSA
2L	11346628	2L_11346628_SNP [dm3] 2L_11346628_SNP [dm6]	A	G	3.125e^-5	0.671	INTERGENIC	TF binding site BDTNP1_TFBS_twi mE1_TFBS_D mE1_TFBS_HSA
3L	4512862	3L_4512862_SNP [dm3] 3L_4512862_SNP [dm6]	T	A	3.150e^-5	0.671	INTRON Tie	TF binding site mE1_TFBS_chinmo mE1_TFBS_HSA
2L	7578960	2L_7578960_SNP [dm3] 2L_7578960_SNP [dm6]	C	A	3.313e^-5	0.698	START_GAINED RapGAP1 UTR_5_PRIME RapGAP1
2L	7578928	2L_7578928_DEL [dm3] 2L_7578928_DEL [dm6]	TGGGGTT	T	3.418e^-5	0.701	UTR_5_PRIME RapGAP1
2L	7578508	2L_7578508_SNP [dm3] 2L_7578508_SNP [dm6]	T	C	3.450e^-5	0.701	NON_SYNONYMOUS_CODING RapGAP1
3R	8215726	3R_8215726_SNP [dm3] 3R_12390004_SNP [dm6]	T	C	3.473e^-5	0.701	SYNONYMOUS_CODING CG34402 DOWNSTREAM CG10096 & 1 other
3L	9988056	3L_9988056_SNP [dm3] 3L_9994956_SNP [dm6]	C	T	3.475e^-5	0.701	INTRON dpr6
2L	7578843	2L_7578843_SNP [dm3] 2L_7578843_SNP [dm6]	C	T	3.518e^-5	0.701	UTR_5_PRIME RapGAP1
3L	2841886	3L_2841886_SNP [dm3] 3L_2841886_SNP [dm6]	G	A	3.549e^-5	0.701	INTRON CG43444
2L	7123656	2L_7123656_SNP [dm3] 2L_7123656_SNP [dm6]	A	G	3.590e^-5	0.701	INTRON Pvf3
2R	6972862	2R_6972862_DEL [dm3] 2R_11085357_DEL [dm6]	CAGCGGGCTGC...	C	3.645e^-5	0.701	UPSTREAM CG43188 DOWNSTREAM CG43189 INTRON luna	TF binding site BDTNP1_TFBS_da BDTNP1_TFBS_dl BDTNP1_TFBS_Med BDTNP1_TFBS_prd BDTNP1_TFBS_slp1 BDTNP1_TFBS_twi mE1_TFBS_HSA mE1_TFBS_sens
2R	12664432	2R_12664432_SNP [dm3] 2R_16776927_SNP [dm6]	A	G	3.703e^-5	0.701	INTERGENIC
2R	16502797	2R_16502797_SNP [dm3] 2R_20615292_SNP [dm6]	T	C	3.720e^-5	0.701	INTRON Hil
2L	8323603	2L_8323603_SNP [dm3] 2L_8323603_SNP [dm6]	T	C	3.756e^-5	0.701	INTRON CG7781

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Cuticul_n_C24 phenotype

Phenotype distribution and association to known covariates

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Phenotype distribution and association to known covariates

QQplot

Manhattan plot

GWAS results