Table 1.

Correlations of true genetic diversity (H_exp_TRUE) with IBD-based diversity (GD_IBD) and heterozygosity (H_exp_AVG and H_exp_HAP2).

MIa	True vs. GD_IBDb	True vs. Hexp_AVGb	True vs. Hexp_HAP2b	GD_IBD vs. Hexp_AVGb	GD_IBD vs. Hexp_HAP2b
1	0.20	0.19	0.20	0.46	0.49
4	0.33	0.27	0.28	0.54	0.58
10	0.46	0.37	0.38	0.64	0.70
20	0.56	0.47	0.50	0.73	0.80
40	0.62	0.61	0.64	0.75	0.82

^a The number of marker intervals taken into account to estimate the genetic diversity.

^b Correlations were calculated for values per marker interval, and for average values for a group of marker intervals (4, 10, 20 and 40 marker intervals); for the latter, correlations were calculated for the true genetic diversity of even ungenotyped markers with the estimated genetic diversity based on uneven (flanking) markers, and the other way around; the average of both correlations (even and uneven) is presented.