Table 3.
Summary of the analyses of selective pressures on ago-1 and dcr-1 with PAML
| Branch models | Site models | Branch-site models | ||||
|---|---|---|---|---|---|---|
|
ago-1 Region 1 (726 nt) |
one-ratio:two-ratio |
P<0.0001 |
|
|
||
| one-ratio:free-ratio |
P<0.0001 |
|
|
|||
|
two-ratio:free-ratio |
P=0.6706 |
M7:M8 |
P<0.0001 |
MAof:MAoe |
P=0.0285 |
|
|
ωago1a=0.0001 |
ωago1b=0.8621 |
4 sites with P>0.95 |
52 sites with P>0.95 |
|||
|
ago-1 Region 2 (909 nt) |
one-ratio:two-ratio |
P<0.0001 |
|
|
||
| one-ratio:free-ratio |
P<0.0001 |
|
|
|||
|
two-ratio:free-ratio |
P=0.0506 |
M7:M8 |
P<0.0001 |
MAof:MAoe |
P=0.0218 |
|
|
ωago1a=0.0001 |
ωago1b=0.6236 |
5 sites with P>0.95 |
74 sites with P>0.95 |
|||
|
ago-1 Region 3 (276 nt) |
one-ratio:two-ratio |
P<0.0001 |
|
|
||
| one-ratio:free-ratio |
P<0.0001 |
|
|
|||
|
two-ratio:free-ratio |
P=0.4675 |
M7:M8 |
P=0.9802 |
MAof:MAoe |
P=1 |
|
|
ωago1a=0.0039 |
ωago1b=0.2476 |
No positively selected sites |
No positively selected sites |
|||
| dcr-1 (957 nt) | one-ratio:two-ratio |
P=0.0002 |
|
|
||
| one-ratio:free-ratio |
P=0.0515 |
|
|
|||
|
two-ratio:free-ratio |
P=0.6424 |
M7:M8 |
P=0.4677 |
MAof:MAoe |
P=1 |
|
| ωdcr-1/1a=0.1247 | ωdcr-1b=0.3577 | No positively selected sites | No positively selected sites | |||
For branch models, the best overall model is highlighted (two-ratio model for all the alignments) with its corresponding ω values. For site and branch-site models, the best model is highlighted as well as the number of positively selected sites when relevant. MAof: model MA with omega fixed to 1; MAoe: model MA with omega estimated. See text for further explanations about the models.