From:Identification and evolution of C4photosynthetic pathway genes in plants
| Test Used | Foregroud branches | Model | ω | LnL | Estimates of parameters | df | P | Positively selected sites under BEB |
|---|---|---|---|---|---|---|---|---|
| Site analysis | – | M0:(one-ratio) | 0.081 | −30,030.68 | ω = 0.081 | – | – | – |
| – | M3:(discrete) | 0.088 | −29,088.89 | p0 = 0.468 ω0 = 0.012 | 4 | 0.000 (M0 vs M3) | – | |
| p1 = 0.415 ω1 = 0.091 | ||||||||
| p2 = 0.117 ω2 = 0.376 | ||||||||
| Branch analysis | – | M0 | – | −30,030.68 | ω = 0.081 | – | – | – |
| – | b1 | – | −30,028.18 | ω0 = 0.081 ω1 = 0.016 | 1 | 0.0254 | – | |
| – | b2 | – | −30,030.66 | ω0 = 0.081 ω1 = 0.072 | 1 | 0.8415 | – | |
| – | b3 | – | −30,028.75 | ω0 = 0.081 ω1 = 0.031 | 1 | 0.0495 | – | |
| – | b4 | – | −30,030.66 | ω0 = 0.081 ω1 = 0.102 | 1 | 0.858 | – | |
| – | b5 | – | −30,030.46 | ω0 = 0.081 ω1 = 0.112 | 1 | 0.5052 | – | |
| Branch-site analysis | – | M1 | – | −29,644.79 | p0 = 0.912 p1 = 0.088 | – | – | – |
| b1 | Model A | – | − 29,633.47 | p0 = 0.862 p1 = 0.083 (p2a + p2b = 0.055) | 2 | < 0.0001 (ModelA vs M1) | Prob > 0.6 (28Ra, 59 La, 108 Va, 125R, 144 T, 169 L, 181Sa, 204 L) | |
| ω2 = 37.343 | ||||||||
| b2 | Model A | – | −29,644.79 | p0 = 0.912 p1 = 0.088 (p2a + p2b = 0.000) | 2 | 1.0000 (ModelA vs M1) | Prob > 0.6 (NO) | |
| ω2 = 1.000 | ||||||||
| b3 | Model A | – | −29,642.93 | p0 = 0.906 p1 = 0.088 (p2a + p2b = 0.006) | 2 | 0.1564 (ModelA vs M1) | Prob > 0.6 (59 La, 182 L) | |
| ω2 = 19.072 | ||||||||
| b4 | Model A | – | −29,645.74 | p0 = 0.831 p1 = 0.080 (p2a + p2b = 0.089) | 2 | 0.3852 (ModelA vs M1) | Prob > 0.6 (NO) | |
| ω2 = 3.081 | ||||||||
| b5 | Model A | – | −29,641.83 | p0 = 0.895 p1 = 0.0.087 (p2a + p2b = 0.018) | 2 | 0.0518 (ModelA vs M1) | Prob > 0.6 (59 L, 63S, 86Ea, 108 V, 181S) | |
| ω2 = 11.224 |