Table 2.

Comparing Tajima’s D of selected alleles with null distributions

		P-value of Mann-Whitney test in Tajima’s D distributions			Tajima’s D rejection rate
		s¶ = 0.001	s = 0.01	s = 0.1	s = 0.001	s = 0.01	s = 0.1
S§ = 5
Host selection model	Standard null	0.82	0.81	0.87	3 %	3 %	4 %
	Adjusted null	0.001	0.002	0.002	9 %	10 %	9 %
transmission selection model	Standard null	0.61	0.05	0.47	4 %	5 %	5 %
	Adjusted null	0.0001	3.4 × 10−8	2.9 × 10−5	13 %	15 %	9 %
host/transmission selection model	Standard null	0.14	0.009	0.26	7 %	7 %	7 %
	Adjusted null	3.7 × 10−7	2.3 × 10−10	3.9 × 10−6	14 %	15 %	15 %
S = 10
Host selection model	Standard null	0.95	0.98	0.98	4 %	5 %	3 %
	Adjusted null	6.9 × 10−5	0.0003	0.0004	14 %	11 %	11 %
transmission selection model	Standard null	0.74	0.0001	0.17	5 %	8 %	6 %
	Adjusted null	6.4 × 10−7	< 2 × 10−16	6 × 10−11	16 %	22 %	13 %
host/transmission selection model	Standard null	0.02	8.9 × 10−5	0.03	9 %	15 %	8 %
	Adjusted null	1.4 × 10−12	< 2 × 10−16	1.2 × 10−13	24 %	26 %	18 %
S = 50
Host selection model	Standard null	1	1	1	0 %	3 %	2 %
	Adjusted null	2.5 × 10−7	5.6 × 10−16	< 2 × 10−16	21 %	23 %	27 %
transmission selection model	Standard null	0.22	6.9 × 10−11	0.42	4 %	25 %	6 %
	Adjusted null	< 2 × 10−16	< 2 × 10−16	< 2 × 10−16	45 %	63 %	40 %
host/transmission selection model	Standard null	1.3 × 10−7	< 2 × 10−16	0.008	16 %	21 %	8 %
	Adjusted null	< 2 × 10−16	< 2 × 10−16	< 2 × 10−16	59 %	78 %	46 %

^§S is the number of segregating sites that are sampled from the site-frequency spectrum to calculate Tajima’s D.

^¶s is selection coefficient, referring to refers to h in the host selection model, t in the transmission selection model, and h = t in the host/transmission selection model.