Table 1.

Type I error rates of the cross-population extended haplotype-based homozygosity score test (xp-EHHST).

Sample size n	# of SNPs	ρ	Nominal level			# of SNPs	ρ	Nominal level
			α=0.05	α=0.01	α=0.001			α=0.05	α=0.01	α=0.001
100	51	1.5	0.0684	0.0208	0.0068	61	1.5	0.0488	0.0096	0.0004
		3	0.0672	0.0188	0.0052		3	0.0340	0.0068	0.0004
		6	0.0612	0.0160	0.0040		6	0.0340	0.0056	0.0012
		9	0.0600	0.0180	0.0032		9	0.0348	0.0084	0.0004
	71	1.5	0.0344	0.0056	0.0004	81	1.5	0.0296	0.0056	0.0004
		3	0.0272	0.0044	0.0000		3	0.0304	0.0064	0.0004
		6	0.0256	0.0024	0.0004		6	0.0228	0.0056	0.0000
		9	0.0236	0.0044	0.0004		9	0.0196	0.0048	0.0000
	91	1.5	0.0336	0.0096	0.0008	101	1.5	0.0440	0.0088	0.0012
		3	0.0320	0.0064	0.0008		3	0.0360	0.0048	0.0000
		6	0.0244	0.0036	0.0008		6	0.0220	0.0028	0.0000
		9	0.0216	0.0032	0.0004		9	0.0200	0.0024	0.0004
60	91	1.5	0.0524	0.0088	0.0004	101	1.5	0.0500	0.0084	0.0012
		3	0.0400	0.0076	0.0012		3	0.0392	0.0064	0.0004
		6	0.0200	0.0056	0.0004		6	0.0320	0.0060	0.0004
		9	0.0216	0.0028	0.0000		9	0.0216	0.0024	0.0000

All results were based on 2,500 simulations using Software SelSim [18]