Table 2.

uBS on the CD2 Data Set

Branch	Mean ω	ω–	q–	ωN	qN	ω+	q+	LRT	p	Corrected p
Pig	1.341	0.000	0.443	0.919	0.000	2.811	0.557	3.276	0.035	0.352
Cow	1.914	0.000	0.025	0.000	0.513	10.732	0.462	23.465	0.000	0.000
3	1.480	0.000	0.328	0.000	0.370	7.824	0.303	5.989	0.007	0.079
Horse	1.244	0.000	0.001	0.000	0.569	5.190	0.430	11.463	0.000	0.005
Cat	1.598	0.252	0.463	1.000	0.137	6.544	0.400	13.309	0.000	0.002
6	0.664	0.000	0.906	0.118	0.000	37.328	0.094	7.432	0.003	0.038
RHmonkey	22.503	1.000	0.007	1.000	0.316	113.398	0.677	1.196	0.137	0.822
Baboon	0.000	0.000	0.550	0.000	0.336	0.000	0.113	0.000	1.000	1.000
9	0.400	0.047	0.000	0.443	1.000	0.009	0.000	0.000	1.000	1.000
Human	0.002	0.126	0.468	0.215	0.384	2.963	0.148	0.000	0.500	1.000
Chimpanzee	24.634	0.313	0.000	0.812	0.000	47.512	1.000	0.630	0.214	1.000
12	0.368	0.000	0.149	0.000	0.803	12.624	0.048	1.393	0.119	0.952
13	1.915	1.000	0.020	1.000	0.888	39.772	0.092	8.823	0.001	0.019
14	0.432	0.156	0.039	0.162	0.730	2.581	0.232	1.315	0.126	0.880
Rat	1.093	0.000	0.552	0.002	0.000	2.998	0.448	0.367	0.272	1.000
Mouse	0.524	0.400	0.947	0.799	0.000	22.217	0.053	2.240	0.067	0.605

Mean ω is estimated under the free-ratio MG94 × REV model (no site-to-site rate variation). ω and q values reflect the branch-level mixture of negative, (nearly) neutral, and positive selection models. LRT: likelihood ratio test statistic, p: uncorrected p-value obtained using the mixture of χ²₀ and χ²₁ distributions; corrected p: after an application of Holm's multiple testing correction. Internal branches are numbered concordantly with figure 2. Branches found by uBS to be under positive diversifying selection are shown in italic.