Table 4.

Log-likelihood Values and Parameter Estimates for the Site Models.

Model code	ℓ	d N/dS	Estimates of parametersa
M0 (one-ratio)	ℓ = −12,249.40	0.336	ω = 0.336
M1a (nearly neutral)	ℓ = −11,969.77	0.501	p 0 = 0.548 (p1 = 0.451) ω0 = 0.089
M2a (positive selection)	ℓ = −11,969.77	0.501	p 0 = 0.548, p1 = 0.041 (p2 = 0.410), ω0 = 0.089
M7 (beta)	ℓ = −11,944.13	0.391	p = 0.352, q = 0.548
M8 (beta&ω)	ℓ = −11,937.85	0.436	p 0 =0.942 (p1 = 0.058) p = 0.404, q = 0.750, ω = 1.841

^aParameters in parentheses are given by free parameters in the model (i.e., p₁ = 1 − p₀ and p₂ = 1 − p₀ − p₁; see table 1).