Table 1. Summary of selective pressure analysis for the hearing genes Cdh23, Pcdh15, and Otof.

Gene	branch	Parameter Estimated					2ΔlnLP value	Positively Selected Sites (BEB Analysis)
		site class	0	1	2a	2b
Cdh23	branch b	proportion	0.92097	0.05178	0.02580	0.00145	10.4158 P<0.01	213 A, 692 F, 1165 N, 1171 S, 1256 D, 1356 I, 2492 L
		background ω	0.03156	1.00000	0.03156	1.00000
		foreground ω	0.03156	1.00000	3.85446	3.85446
	branch d	proportion	0.94313	0.05687	0.00000	0.00000	0
		background ω	0.03347	1.00000	0.03347	1.00000
		foreground ω	0.03347	1.00000	1.00000	1.00000
	branch g	proportion	0.92922	0.05575	0.01418	0.00085	10.7224 P<0.01	580 S, 840 H, 1011 H, 1014 T, 2133 T, 2224 T
		background ω	0.03168	1.00000	0.03168	1.00000
		foreground ω	0.03168	1.00000	5.94936	5.94936
Pcdh15	Branch b	proportion	0.79672	0.11161	0.08040	0.01126	2.6591P = 0.1	454 H, 816 T
		background ω	0.02983	1.00000	0.02983	1.00000
		foreground ω	0.02983	1.00000	2.00038	2.00038
	branch d	proportion	0.86720	0.12926	0.00308	0.00046	6.4259 P<0.05	573 T 0.921
		background ω	0.03721	1.00000	0.03721	1.00000
		foreground ω	0.03721	1.00000	24.77802	24.77802
	Branch g	proportion	0.81368	0.11630	0.06127	0.00876	2.9014P = 0.09	1584D
		background ω	0.03403	1.00000	0.03403	1.00000
		foreground ω	0.03403	1.00000	2.72477	2.72477
Otof	Branch b	proportion	0.95114	0.03918	0.00930	0.00038	0.7680P<0.5
		background ω	0.02313	1.00000	0.02313	1.00000
		foreground ω	0.02313	1.00000	3.10544	3.10544
	branch d	proportion	0.95968	0.04032	0.00000	0.00000	0P = 1
		background ω	0.02352	1.00000	0.02352	1.00000
		foreground ω	0.02352	1.00000	1.00000	1.00000
	Branch g	proportion	0.92038	0.03758	0.04039	0.00165	0P = 1	944 L
		background ω	0.02221	1.00000	0.02221	1.00000
		foreground ω	0.02221	1.00000	1.00000	1.00000