Table 1.

Number of regions of interest that overlap significant hotspots of W→S mutations. Hotspots were evaluated in the context of genomic regions of different sizes, as indicated (e.g. 5 kb corresponds to a genomic region encompassing 2.5 kb upstream and 2.5 kb downstream of the HAR midpoint). FDR5 indicates the number of hotspots that pass the significance threshold of 5% false discovery rate; “Overall” indicate the total number of significant hotspots regardless of the size of the genomic region considered around HARs (i.e. union of those subsets); numbers in parentheses include HARs that overlap significant hotspots of W→S mutations if the masking effect of stronger hotspots was considered for second and third ranking hotspots.

Type of correction for multiple testing	Size of HAR genomic surroundings					Overall
	5 kb	10 kb	20 kb	30 kb	40 kb
HARs (out of 202)
No correction	18 (21)	12 (20)	10 (17)	12 (13)	10 (12)	25 (36)
FDR5	7 (7)	4 (5)	3 (3)	2 (4)	3 (4)	9 (11)
phastBias gBGC tracts (out of 9370)
No correction	5156 (5355)	4818 (5272)	4024 (4895)	3552 (4680)	3213 (4447)	6343 (7211)
FDR5	4087 (4269)	3659 (4152)	2580 (3488)	2017 (3188)	1699 (2946)	5131 (6068)