. 2010 Feb 8;27(7):1585–1597. doi: 10.1093/molbev/msq043

Table 2.

Results of PAML Model Comparisons.

Gene	N^a	Lc^b	S^c	d_N/d_S^d	−2ΔlM8 versus M8A^e	−2ΔlM1 versus M2^e	−2ΔlM7 versus M8^e	Parameter Estimates from M8	Positively Selected Sites^f
CENP-A	14	140	1.1	0.40	18.1**	18.1**	19.4**	p₁ = 0.13, d_N/d_S = 3.5	7S, 17S, 18P, 35A, 39Q, 41S, 42R, 45Q, 46G, 62I, 65L, 76V
CENP-A	14	140	1.1	0.40	18.1**	18.1**	19.4**	p₀ = 0.87, β(19.2, 99)
CENP-B	16	618	0.9	0.06	0.0	0.0	0.0	NA	NA
CENP-C	13	950	1.1	0.75	24.6**	24.4**	24.8**	p₁ = 0.07, d_N/d_S = 3.9	12G, 24R, 64R, 83P, 99F, 106A, 108N, 117H, 126S, 132D, 133S, 136I, 177S, 192M, 229D, 240S, 256R, 283A, 287P, 291C, 294D, 296T, 297K, 325G, 331T, 332I, 372T, 385Y, 391T, 395Y, 405K, 412R, 417I, 429P, 436V, 444I, 445H, 446T, 450T, 452D, 453E, 465H, 468M, 472C, 479P, 481V, 499R, 506N, 526R, 553H, 558R, 567S, 572R, 589Q, 594F, 613S, 614L, 633C, 650Q, 653P, 670N, 676H, 679S, 690N, 699N, 707H, 715Q, 769S, 771V, 777I, 778S, 787I, 791N, 834E, 841V, 891V
CENP-C	13	950	1.1	0.75	24.6**	24.4**	24.8**	p₀ = 0.93 β (0.15, 0.078)
C2orf18^g	14	371	0.8	0.05	0.4	0.54	7.86*	p₁ = 0.03, d_N/d_S = 1.4	32M, 73A, 167H, 169S, 264V, 350L
C2orf18^g	14	371	0.8	0.05	0.4	0.54	7.86*	p₀ = 0.97, β (0.66, 18.64)	32M, 73A, 167H, 169S, 264V, 350L
SPEF1^g	16	236	1.1	0.14	0.0	0.0	0.0	NA	NA
*STAP1*^g	13	299	0.69	0.27	0.0	0.0	0.2	NA	NA
*Dpysl5*^g	14	564	0.54	0.02	0.0	0.0	0.0	NA	NA
CDC25^g	13	588	0.91	0.14	0.2	0.0	1.8	NA	NA

Number of taxa.

Length of alignment in codons.

Tree length.

Ratio of nonsynonymous to synonymous nucleotide changes.

For model comparisons (see text), significance is indicated with one (P < 0.05) or two asterisks (P < 0.0001).

For positively selected residues, those in bold have posterior probabilities >0.90, underlined 0.70–0.89, and regular font 0.50–0.69.

Non-CENP genes listed here are included to evaluate potential regional selection. C2orf18 and DPYSL5 flank CENP-A; SPEF1 and CDC25B flank CENP-B; and STAP1 is the only other complete gene within the analyzed CENP-C–containing region (see supplementary fig. 1, Supplementary Material online).