Table 1.

Parameter values used in simulating sequences at the nuclear loci

Species tree	$\tau$s	$\theta$s
Low-mutation rate
Tree 1	(0.001, 0.002, 0.003)	0.002
Tree 2	(0.001, 0.001, 0.003)	0.002
High-mutation rate
Tree 1	(0.01, 0.02, 0.03)	0.02
Tree 2	(0.01, 0.01, 0.03)	0.02

Notes: At the mitochondrial locus, the mutation rate is assumed to be 20 times as high as at a nuclear locus, and the population size is assumed to be one-fourth as large. Thus, ${\tau }_{\text{mt}}=20{\tau }_{\text{nuc}}$ and ${\theta }_{\text{mt}}=5{\theta }_{\text{nuc}}$.