Table 4 Maximum-likelihood analysis of PMM-1 and 2 genes and detection of codon sites under positive selection
| Â | Â | Â | Â | Â | Â | Likelihood ratio test (LRT) | ||
|---|---|---|---|---|---|---|---|---|
Model | P | Likelihood | Parameter estimate a | NEB b | BEB b | 2Δl | df | Pvalue |
M0 (one ratio) | 1 | -1433.52 | ω = 0.155 | NA | NA |  |  |  |
Two ratio | 2 | -1433.09 | ωPMM-1 = 0.114; ωPMM-2 = 0.186 | NA | NA | 0.4223 (two ratio versus one ratio) | 1 | 0.5158 |
M1a: nearly neutral | 1 | -1430.84 | p0 = 0.917; p1 = 0.083; ω0 = 0.076; ω1 = 1.000 | NA | NA |  |  |  |
M2a: positive selection | 3 | -1429.69 | p0 = 0.989; p1 = 0.000; p2 = 0.011; ω0 = 0.119; ω1 = 1.000; ω2 = 4.902 | 10N (0.999*); 96 H (0.793) | 10N (0.867); 96 H (0.680) | 2.2947 (M2a versus M1a) | 2 | 0.3175 |
M3: discrete (k = 2) | 3 | -1429.69 | p0 = 0.989; p1 = 0.011; ω0 = 0.119; ω1 = 4.901 | 10N (0.999*); 96 H (0.793) | None |  |  |  |
M3: discrete (k = 3) | 5 | -1429.69 | p0 = 0.933; p1 = 0.056; p2 = 0.011; ω0 = 0.119; ω1 = 0.120; ω2 = 4.902 | 10N (0.999*); 96 H (0.793) | None | 7.6562 (M3 versus M0) | 4 | 0.1050 |
M7: beta | 2 | -1431.48 | p = 0.0489; q = 0.241 | NA | NA | NA | Â | Â |
M8: beta and ω | 4 | -1429.70 | p0 = 0.989; p = 13.583; q = 99.000; p1= 0.011; ω = 4.909 | 10N (0.999*); 96 H (0.786) | 10N (0.944); 96 H (0.778) | 3.5539 (M7 versus M8) | 2 | 0.1692 |