Models | lnL | Compared | 2ΔLnL | P-value | Parameter estimates |
---|---|---|---|---|---|
Branch model | Â | Â | Â | Â | Â |
M0:one-ratio | −6347.5127 |  |  |  | ω = 0.2486 |
M1:free-ratio | −6316.3339 | M0 vs. M1 | 62.3576 | p > 0.05 |  |
Foreground branch: all lineages of Cercopithecidae except for the ancestral branch | |||||
H1: ω0, ω1 | −6344.8700 | M0 vs. H1 | 5.2854 | p < 0.05 | ω0 = 0.3112, ω1 = 0.1981 |
H0: ω0, ω1 = 1 | −6412.3663 | H0 vs. H1 | 134.9926 | p < 0.01 | ω0 = 0.3149, ω1 = 1.0000 |
Foreground branch: ancestral of Mandrillus, Cercocebus, Papio, Lophocebus, Theropithecus and Macaca | |||||
H1: ω0, ω1 | −6343.4866 | M0 vs. H1 | 8.0522 | p < 0.01 | ω0 = 0.2419, ω1 = +∞ |
Foreground branch: ancestral of Pan, Homo and Gorilla | |||||
H1: ω0, ω1 | −6345.0477 | M0 vs. H1 | 4.9300 | p < 0.05 | ω0 = 0.2379, ω1 = 0.7772 |
H0: ω0, ω1 = 1 | −6345.1667 | H0 vs. H1 | 0.2380 | p > 0.05 | ω0 = 0.2379, ω1 = 1.0000 |
Site model | Â | Â | Â | Â | Â |
M1a | −6316.1817 |  |  |  | p0 = 0.8312, p1 = 0.1688, ω0 = 0.0859, ω1 = 1.0000 |
M2a | −6310.5399 | M1a vs. M2a | 11.2836 | p < 0.01 | p0 = 0.8708, p1 = 0.1159, p2 = 0.0133, ω0 = 0.1137, ω1 = 1.0000, ω2 = 4.7335 |
M8a | −6316.2094 |  |  |  | p0 = 0.8318( p1 = 0.1682), p = 9.4660, q = 99.0000, ω = 1.0000 |
M8 | −6310.7199 | M8a vs. M8 | 10.9790 | p < 0.01 | p0 = 0.9794( p1 = 0.0206), p = 0.4478, q = 1.7622, ω = 4.0147 |
Branch-site model | Â | Â | Â | Â | |
Lineages of Cercopithecidae | Â | Â | Â | Â | |
Null | −6316.1817 |  |  |  | p0 = 0.8312, p1 = 1688 p2a = 0.0000, p2b = 0.0000 ω0 = 0.0859, ω1 = 1.0000 ω2 = 1.0000 |
Alternative | −6308.6453 |  | 15.0728 | p < 0.01 | p0 = 0.8384, p1 = 1583 p2a = 0.0027, p2b = 0.0005 ω0 = 0.0936, ω1 = 1.0000 ω2 = 13.4610 |