TABLE 2.

Examples of pairwise differences of exon 2+3, 4+5, and 6–9 sequences and tests of heterogeneity

			Exon 2+3		Exon 4+5		Exons 6–9
	Allele pair		ds	dn	ds	dn	ds	dn
1	D1-22	D2-38	0.0 ± 0.0**	0.0056 ± 0.004**	0.0 ± 0.0**	0.0 ± 0.0**	0.0698 ± 0.0267	0.0711 ± 0.015
2	A-5	S7-5	0.0102 ± 0.0102*	0.0028 ± 0.0028**	0.0 ± 0.0**	0.0197 ± 0.0114**	0.0656 ± 0.026	0.0564 ± 0.0132
3	S2-31	S7-5	0.0102 ± 0.0102**	0.0028 ± 0.0028**	0.0231 ± 0.023*	0.0197 ± 0.0114*	0.0967 ± 0.0319	0.0534 ± 0.0132
4	D1-22	A1-18	0.0 ± 0.0**	0.0028 ± 0.0028**	0.0233 ± 0.023**	0.0331 ± 0.0149	0.0869 ± 0.0303	0.0564 ± 0.0132
5	A-5	S2-31	0.0 ± 0.0*	0.0 ± 0.0**	0.0229 ± 0.023	0.0 ± 0.0**	0.0505 ± 0.0261	0.0421 ± 0.0113
6	D1-18	S2-31	0.0102 ± 0.0102**	0.0 ± 0.0**	0.0 ± 0.0**	0.0 ± 0.0**	0.0706 ± 0.027	0.033 ± 0.01
7	D2-38	A1-18	0.0 ± 0.0*	0.0028 ± 0.0028**	0.0233 ± 0.023	0.0331 ± 0.0149	0.0546 ± 0.0235	0.0502 ± 0.0125
8	D2-38	S2-31	0.0 ± 0.0**	0.0028 ± 0.0028**	0.0115 ± 0.016	0.0098 ± 0 008	0.0096 ± 0.0096	0.0301 ± 0.0096
9	S2-33	D1-18	0.0312 ± 0.0181	0.017 ± 0.0069	0.0229 ± 0.023*	0.0 ± 0.0**	0.07 ± 0.027	0.0362 ± 0.0105
10	B1-4	D1-22	0.0205 ± 0.0146	0.0227 ± 0.008	0.0 ± 0.0**	0.0263 ± 0.0132	0.0543 ± 0.0234	0.0164 ± 0.007
11	D1-16	D1-22	0.0415 ± 0.0209	0.0199 ± 0.0075	0.0115 ± 0.0162	0.0098 ± 0.008*	0.0594 ± 0.0245	0.0332 ± 0.01
12	A2-8	S7-16	0.042 ± 0.0212	0.0198 ± 0.0075	0.023 ± 0.023	0.0198 ± 0.0114*	0.0642 ± 0.0255	0.041 ± 0.0112
13	S7-16	D1-16	0.0637 ± 0.0263	0.0227 ± 0.008	0.023 ± 0.023	0.0 ± 0.0**	0.0492 ± 0.022	0.021 ± 0.008
14	D1-16	S2-31	0.0415 ± 0.0209	0.017 ± 0.007	0.0 ± 0.0**	0.0 ± 0.0**	0.07 ± 0.027	0.0301 ± 0.0096
15	B2-25	D2-38	0.0205 ± 0.0145*	0.0227 ± 0.008**	0.0 ± 0.0**	0.0332 ± 0.0149	0.0952 ± 0.0314	0.0601 ± 0.0137
16	D1-16	B1-4	0.0416 ± 0.021	0.0141 ± 0.0063	0.0231 ± 0.023	0.0197 ± 0.0114	0.024 ± 0.015	0.023 ± 0.008
17	B1-4	A2-8	0.0206 ± 0.0146	0.017 ± 0.0069	0.0232 ± 0.023	0.0131 ± 0.0093	0.0688 ± 0.0263	0.021 ± 0.008
18	S2-33	D1-16	0.0205 ± 0.0146	0.0141 ± 0.0063	0.0229 ± 0.023	0.0 ± 0.0	0.0488 ± 0.022	0.021 ± 0.008

Mean pairwise differences were separately calculated for synonymous (d_s) and nonsynonymous (d_n) sites along with their standard errors. Heterogeneity of differences across these groups of exons was analyzed by the Z-test. Representative examples of the heterogeneity test are the following: lines 1–8 are examples of differences between sequences that have the most similar 5′-ends in the explorative data analysis (marked with a shaded bar in Figure 2A); lines 9–15 are examples of pairwise comparisons between the two groups that have more similar and more diverged exon 2+3 sequences in the genealogy analysis (shaded bar sequences vs. nonmarked sequences of Figure 2A). The final lines (16–18) are comparisons among the sequences that have diverged exon 2+3 sequences in the genealogy (nonmarked sequences of Figure 2A). Test of the hypothesis that d_s or d_n of exon 2+3 or exon 4+5 equals the corresponding value for exons 6–9; *P < 0.05 and **P < 0.01.