Table 3.
Summary statistics of orthologs for detecting selection using branch models in PAML.
| Tree | Branch model (tree) | ω | ln L | χ2 | p |
|---|---|---|---|---|---|
| Tree 1 | |||||
| One-ratio | ω = 0.09995 for all branches | −4106.505177 | 3.473988 | ||
| Two-ratios | ω0 = 0.12256 for Clade B1 | −4104.768183 | |||
| ω1 = 0.05817 for Clade B2 | |||||
| Tree 2 | |||||
| One-ratio | ω = 0.14031 for all branches | −3879.08919 | 3.149266 | ||
| Two-ratios | ω0 = 0.3196 for Clade A1 | −3877.514557 | |||
| ω1 = 0.1330 for Clade A2 | |||||
| Tree 3 | |||||
| One-ratio | ω = 0.07578 for all branches | −4312.023369 | 0.768848 | ||
| Two-ratios | ω0 = 0.10875 for Clade B1 | −4311.638945 | |||
| ω1 = 0.07299 for Clade B2 | |||||
| Tree 4 | |||||
| One-ratio | ω = 0.19107 for all branches | −3400.606728 | 3.567392 | ||
| Two-ratios | ω0 = 0.34271 for Clade A1 | −3398.823032 | |||
| ω1 = 0.17030 for Clade A2 | |||||
| Tree 5 | |||||
| One-ratio | ω = 0.09507 for all branches | −2426.383206 | 7.862458 | < 0.05 | |
| Two-ratios | ω0 = 0.40447 for Clade A1 | −2422.451977 | |||
| ω1 = 0.08459 for Clade A2 | |||||
| Tree 6 | |||||
| One-ratio | ω = 0.13484 for all branches | −3524.776614 | 5.583034 | < 0.05 | |
| Two-ratios | ω0 = 0.30109 for Clade A1 | −3521.985097 | |||
| ω1 = 0.12124 for Clade A2 |