TABLE 4.

Neutrality tests using silent polymorphisms

					No. loci		Sign testb
	Average	Pa	Variance	Pa	+2.5%	−2.5%	+	−	P
n = 195 loci without outgroup
Tajima's D	−0.4712	<0.0001*	1.0173	0.1158	3	17	50	127	<0.001*
Fu and Li's D*	−0.4745	<0.0001*	1.2352	<0.0001*	7	15	64	111	<0.001*
D/Dminc	−0.2944	<0.0001*	0.3578	0.9140	2	5	49	126	<0.001*
n = 43 loci with A. lyrata outgroup
Fu and Li's D	−0.4265	0.0050*	1.4813	0.0012*	2	6	10	21	0.071
Fay and Wu's H	−0.3506	0.8610	2.5091	0.6028	3	2	22	16	0.418
H/Hmind	−0.0277	0.8280	0.0475	0.6982	0	2	16	15	1.000
n = 20 loci with B. drummondii outgroup
Fu and Li's D	−0.6809	0.0004*	1.1118	0.3920	0	2	4	13	0.049*
Fay and Wu's H	−0.7451	0.5748	6.7061	0.2118	1	0	12	7	0.359
H/Hmind	0.0328	0.1068	0.0242	0.4020	0	0	9	6	0.607

^*Significant P-values (P ≤ 0.05).

^aTwo-tailed probability.

^bNumber of loci with values larger (+) and smaller (−) than the median in coalescent simulations.

^cTajima's D divided by its minimum (Schaeffer 2002).

^dFay and Wu's H divided by its minimum (see materials and methods).