Table 1.- Variants (SNPs) included in the PRS calculation
(Disease/Trait: Congenital_heart_malformation)
rsID	Risk allele	Effect size
rs1531070	A	0.336
rs2474937	G	0.336
Effect size: LN(OR)

Table 2.- PRS Score distribution among populations and regions
(Disease/Trait: Congenital_heart_malformation)
	count	mean	sd	se	lower.ci	upper.ci
Pyrenean regions
WEST	168	0.079	0.071	0.005	0.068	0.090
SOUTH	83	0.091	0.078	0.009	0.074	0.108
EAST	146	0.103	0.081	0.007	0.090	0.116
Populations
IBS	107	0.089	0.081	0.008	0.073	0.104
PIR	397	0.090	0.077	0.004	0.083	0.098

Table 3.- Pairwise t-test for PRS score among populations and regions
(Disease/Trait: Congenital_heart_malformation)
group1	group2	n1	n2	p	p.signif	p.adj	p.adj.signif
IBS	PIR	107	397	0.84500	ns	1.0000	ns
IBS	WEST	107	168	0.30900	ns	1.0000	ns
IBS	SOUTH	107	83	0.83300	ns	1.0000	ns
IBS	EAST	107	146	0.14600	ns	1.0000	ns
WEST	SOUTH	168	83	0.24300	ns	1.0000	ns
WEST	EAST	168	146	0.00608	**	0.0608	ns
SOUTH	EAST	83	146	0.26200	ns	1.0000	ns
* p < .05, ** p < .01, *** p < .001

Table 4.- Chi-square test comparison of percentile counts on Pyrenean regions compared to Iberian peninsula population
(Disease/Trait: Congenital_heart_malformation)
Percentile rank	PIR				WEST				SOUTH				EAST
	adj.std.val	p.value	sig.val		adj.std.val	p.value	sig.val		adj.std.val	p.value	sig.val		adj.std.val	p.value	sig.val
pct95	−0.880	0.379	.	white	−0.320	0.749	.	white	−0.880	0.379	.	white	0.320	0.749	.	white
pct75.95	0.190	0.849	.	white	−1.720	0.085	.	white	0.190	0.849	.	white	0.690	0.490	.	white
pct50.75	0.310	0.757	.	white	−0.260	0.795	.	white	0.310	0.757	.	white	0.360	0.719	.	white
pct25.50	0.090	0.928	.	white	0.820	0.412	.	white	0.090	0.928	.	white	0.680	0.497	.	white
pct25	−0.340	0.734	.	white	0.150	0.881	.	white	−0.340	0.734	.	white	−1.570	0.116	.	white
adj.std.val: Adjusted standardized residuals value; p.value: P value; sig.val: statistical significance, * p < .05, ** p < .01, *** p < .001; red dash to bottom: lower counts than reference; green dash to up: upper counts than reference