Primate phylogenomics: developing numerous nuclear non-coding, non-repetitive markers for ecological and phylogenetic applications and analysis of evolutionary rate variation

Table 5 Relative rate test: Comparisons of evolutionary changes among several primate lineages.

Lineage 1	Lineage 2	Outgroup	K1	K2	dK	sd_dK	P	Ratio
OWM	HOM	Marmoset	12.20	11.14	1.06	0.36	0.003**	1.36
OWM	HOM	Lemur	23.48	22.20	1.28	0.42	0.002**	1.48
Macaque	Baboon	Marmoset	12.48	12.08	0.40	0.18	0.029*	1.93
Macaque	Baboon	Lemur	23.86	23.42	0.44	0.21	0.039*	1.99
Baboon	HOM	Marmoset	12.00	11.14	0.86	0.37	0.019*	1.28
Macaque	HOM	Marmoset	12.42	11.15	1.26	0.38	0.000***	1.43
Marmoset	Spider monkey	Lemur	23.83	22.77	1.06	0.44	0.015*	1.48
NWM	HOM	Lemur	23.34	22.06	1.28	0.50	0.011*	1.24

Notes. 1. K1, number of substitutions per site that lineage 1 accumulated starting from the split with lineage 2; dK, the difference between K1 and K2 numbers of substitutions; sd_dK, standard deviation for dK; P, significance value for differences in substitution rates between lineage 1 and lineage 2; Ratio, the ratios of the branch length leading to the lineage 1 to that leading to the lineage 2 since the divergence of the two lineages.
2. HOM = hominoids, OWM = Old World monkey, NWM = New World monkey.
3. *significant at 0.05 level; **significant at 0.01 level; ***significant at 0.001 level.

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