Table 3 Log-likelihood values and parameter estimates for the codon-based models of nucleotide substitutions
Model | LnL | Estimates of Parameters* | Predicted positively selected sites¶ |
|---|---|---|---|
M0 (one-ratio) | -7522 | ω = 0.91 | None |
M1 (neutral) | -7491 | ω0 = 0 (p0 = 0.46) ω1 = 1 (p1 = 0.54) | Not allowed |
M2 (selection) | -7461 | ω0 = 0 (p0 = 0.42) ω1 = 1 (p1 = 0.48) ω2 = 5.96 (p2 = 0.01) |  |
M3 (discrete) | -7461 | ω0 = 0.06 (p0 = 0.56) ω1 = 1.59 (p1 = 0.38) ω2 = 7.61 (p2 = 0.06) |  |
M7 (beta) | -7491 | P = 0.024 q = 0.020 | Not allowed |
7M8 (beta + ω) | -7461 | p = 0.024 q = 0.021 (p0 = 0.90) ω = 5.75 (p1 = 0.10) |  |