Table 3.
Parameters estimation and likelihood ratio tests for the branch-site models
| Cluster | Site class | Proportion | Backgroud | Foregroud | Positive Selected Sitesa |
|---|---|---|---|---|---|
| ɯ | ɯ | ||||
| EXPA | 0 | 1 | 0.05125 | 0.05125 | NONE |
| 1 | 0 | 1 | 1 | ||
| 2a | 0 | 0.05125 | 1 | ||
| 2b | 0 | 1 | 1 | ||
| EXPB | 0 | 0.94523 | 0.05111 | 0.05111 | NONE |
| 1 | 0 | 1 | 1 | ||
| 2a | 0.05477 | 0.05111 | 160.397 | ||
| 2b | 0 | 1 | 160.397 | ||
| EXLA | 0 | 0.76842 | 0.05103 | 0.05103 | 166G*,169Y*,170F*,182G* |
| 1 | 0 | 1 | 1 | ||
| 2a | 0.32973 | 0.05103 | 1.52409 | ||
| 2b | 0 | 1 | 1.52409 |
aPositive-selection site are inferred at poster probabilities > 80%
*Sites were also found to be implicated in the functional divergence
Note: All sites are located on the reference sequence TaEXPA1-A based on the multiple alignment results