Table 1.
Likelihood analysis of the usp sequence datasets of five extant insect groups
| Model | Drosophilidae | Diptera | Lepidoptera | Tenebrionidae | Blattaria | |
|---|---|---|---|---|---|---|
| M1a |
LnL (np) |
-5649.5 (31) |
-6946.6 (25) |
-4376.2 (12) |
-2113.5 (10) |
-1945.6 (13) |
|
ω0ω1 |
0.02 1.00 |
0.03 1.00 |
0.03 1.00 |
0.01 1.00 |
0.00 1.00 |
|
|
p0p1 |
0.98 0.02 |
0.98 0.02 |
0.95 0.05 |
0.99 0.01 |
0.99 0.01 |
|
| M2a |
LnL (np) |
-5649.5 (33) |
-6946.6 (27) |
-4376.2 (14) |
-2113.5 (12) |
-1945.6 (15) |
|
ω0ω1ω2 |
0.02 1.00 1.00 |
0.03 1.00 1.00 |
0.03 1.00 1.00 |
0.01 1.00 1.00 |
0.00 1.00 1.24 |
|
|
p0p1p2 |
0.98 0.01 0.01 |
0.98 0.01 0.01 |
0.95 0.03 0.02 |
0.99 0.01 0.00 |
0.99 0.01 0.00 |
|
| M7 |
LnL (np) |
-5610.8 (31) |
-6859.5 (25) |
-4339.9 (12) |
-2112.9 (10) |
-1950.0 (13) |
|
p q |
0.16 5.05 |
0.40 10.7 |
0.15 2.58 |
0.06 3.13 |
0.01 0.31 |
|
| M8 |
LnL (np) |
-5610.8 (33) |
-6857.1 (27) |
-4338.8 (14) |
-2112.9 (12) |
-1946 (15) |
|
p q |
0.16 5.05 |
0.43 12.9 |
0.16 2.85 |
0.06 3.13 |
0.02 2.09 |
|
|
ωs |
1.00 |
1.00 |
4.46 |
1.00 |
1.00 |
|
|
ps |
0.00 |
0.01 |
0.00 |
0.00 |
0.01 |
|
| LRT (p-value) |
test of positive selection |
|||||
| M2a vs M1a |
1 |
1 |
1 |
1 |
1 |
|
| M8 vs M7 | 1 | 0.08 | 0.32 | 1 | 0.02 | |
LnL: log likelihood. np: number of parameters. ω0, ω1, ω2: non-synonymous/synonymous rate ratio that characterize a negative, a neutral, and a positive selection regime, respectively (with corresponding proportions of sites p0, p1, p2). p and q: shape parameters of a β function describing the distribution of non-synonymous/synonymous rate ratios. ωs: ratio affecting a ps proportion of sites under positive selection in model M8. LRT: Likelihood ratio test.