Table 3.
Comparison of the proportion of genes showing evidence of positive selection under the site model, branch-site model, and branch model between slow (n = 963), clock-like (n = 2996), and accelerated (n = 884) categories. P values for the different tests were corrected using a Bonferroni correction prior to the comparisons. mel: D. melanogaster, sim: D. simulans, sec: D. sechellia, simsecmel: branch leading to the D. melanogaster clade, yak: D. yakuba, ere: D. erecta, and yakere: branch leading to the D. yakuba clade.
| Model | Slow | Clock-like | Accelerated |
|---|---|---|---|
| Site model | |||
| M7/M8 | 6 | 40 | 9 |
|
| |||
| Branch-site model | |||
| mel | 0 | 8 | 0 |
| sim | 5 | 51 | 39 |
| sec | 10 | 29 | 9 |
| simsecmel | 3 | 6 | 3 |
| yakere | 3 | 4 | 0 |
|
| |||
| Branch model | |||
| mel | 0 | 6 | 6 |
| sim | 0 | 3 | 24 |
| sec | 1 | 13 | 3 |
| simsecmel | 1 | 59 | 80 |
| yak | 20 | 20 | 0 |
| ere | 36 | 26 | 0 |
| yakere | 68 | 83 | 0 |