TABLE 1.

Lineage-specific evolutionary rates from analysis of S. cerevisiae strain pairs

A.
S288C	—	0.218 (0.209–0.227)	0.209 (0.200–0.219)
RM	0.262 (0.250–0.274)	—	0.259 (0.249–0.270)
YJM	0.178 (0.169–0.186)	0.188 (0.180–0.196)	—
S. paradoxus	0.126 (0.124–0.129)	0.126 (0.124–0.129)	0.126 (0.124–0.129)
B.
S. cerevisiae difference	<10−10	2.02 × 10−7	<10−10

Each column represents one strain pair, illustrated by the trees above; branch lengths of the trees are not to scale. (A) Each row represents one branch, designated at the left by the genome at its tip. The relative rate of nonsynonymous-to-synonymous mutations along the indicated branch is given, calculated from the sum of each class of changes, and the number of each class of sites, across all inferred gene trees as described (Chimpanzee Sequencing and Analysis Consortium 2005; Gu et al. 2005). Confidence intervals of 95% from 1000 gene resamplings with replacement are given in parentheses. (B) The χ² significance of the difference in the number of nonsynonymous and synonymous changes in the two S. cerevisiae lineages indicated in the tree is given.