Model | ρ | ℓ | Parameter est. | Positively selected sites |
---|---|---|---|---|
1 ratio (R0) | 1 | -1460.1 | ω = 0.7 | |
Branch specific | ||||
2 ratios (R2) | 2 | -1459.9 | ω0 = 0.7(background), ω 1 = 1.1 (branch A) | |
Site specific | ||||
Neutral (M1) | 1 | -1424.4 | ρ0 = 0.1, ρ1 = 0.8 | not allowed |
Selection (M2) | 3 | -1416.6 | ρ0 = 0.1, ρ1 = 0.6, ρ 2 = 0.2, ω 2 = 2.9 | 15L (P >0.99) 14H, 27H, 28R, 36V (P >0.95) |
Discrete (M3) (k = 2) | 3 | -1421.4 | ρ0 = 0.2, ω0 = 0.03, ρ 1 = 0.8, ω 1 = 1.0 | 37 sitesa (P >0.99) |
Discrete (M3) (k = 3) | 5 | -1413.8 | ρ0 = 0.1, ω0 = 0.01, ρ1 = 0.5, ω1 = 0.6, ρ 2 = 0.3, ω 2 = 2.0 | 15L, 27H, 28R (P >0.99) 14H, 25G, 26R, 30D, 36V (P > 0.90) |
Beta (M7) | 2 | -1419.6 | ρ0 = 0.2,q = 0.2 | not allowed |
Beta&ω (M8) | 4 | -1414.6 | ρ0 = 0.8,p = 0.3, q = 0.06, ρ 1 = 0.2, ω 1 = 2.6 | 15L, 28R (P > 0.95) 14H, 27H, 36V (P > 0.90) |
Branch-Site | ||||
Model A | 3 | -1418.4 | ρ0 = 0.1, ρ1 = 0.6, ρ 2 = 0.2, ω 2 = 3.0 | In the foreground lineage: 13K, 37I (P > 0.95) |
Model B | 5 | -1416.4 | ρ0 = 0.1, ω0 = 0.01, ρ1 = 0.6, ω1 = 0.6, ρ 2 = 0.3, ω 2 = 3.2 | In the foreground lineage: 13K, 37I (P > 0.95) In the background lineages: no significant sites |