TABLE 1.
P values for the tree incongruence tests
| Dataa |
P value for treeb:
|
|||
|---|---|---|---|---|
|
pol
|
env gp41
|
|||
| KH | SH | KH | SH | |
| pol | Best ML tree | Best ML tree | 0.324 | 0.166 |
| env gp41 | <0.001 | <0.001 | Best ML tree | Best ML tree |
| polenv | 0.033 | 0.024 | Best ML tree | Best ML tree |
| pol-RT | 0.822 | 0.388 | Best ML tree | Best ML tree |
a
polenv represents the concatenated pol and env gp41 alignment, and pol-RT represents the pol alignment after exclusion of the positions associated with drug resistance in the RT.
b
The results for the Kishino-Hasegawa (KH) and Shimodaira-Hasegawa (SH) tests are listed for the Hasegawa-Kishino-Yano model of evolution with gamma-distributed rate heterogeneity among sites; the tests for other models of evolution are consistent with these results (data not shown).