Table 3.
Detection of positive selection under site-specific model.
| Group | Na | dN/dS(ω) under M0b | 2Δ/M3 vs. M0c | 2Δ/M8 vs. M7c | M8 estimatesd | Positively selected sitese |
|---|---|---|---|---|---|---|
| I-1 | 7 | 0.140 | 620.331** | 123.550** | p1 = 0.117, ω = 1.833 | 31 |
| β (p = 1.000, q = 10.380) | ||||||
| I-2 | 3 | 0.425 | 72.153** | 16.600** | p1 = 0.031, ω = 19.426 | – |
| β (p = 0.428, q = 0.560) | ||||||
| II-1 | 5 | 0.095 | 145.763** | 1.774 | p1 = 0.018, ω = 1.328 | – |
| β (p = 0.333, q = 2.962) | ||||||
| II-2 | 8 | 0.079 | 610.610** | 32.373** | p1 = 0.019, ω = 217.11 | 4 |
| β (p = 0.345, q = 3.406) | ||||||
| II-3 | 9 | 0.104 | 609.630** | 0.008 | p1 = 0.00001, ω = 3.705 | – |
| β (p = 0.389, q = 2.518) | ||||||
| II-4 | 13 | 0.149 | 981.750** | 7.786** | p1 = 0.015, ω = 1.263 | – |
| β (p = 0.511, q = 2.624) | ||||||
| II-5 | 10 | 0.164 | 852.843** | 0.621 | p1 = 0.002, ω = 4.772 | – |
| β (p = 0.532, q = 2.021) |
a
Number of the sequences in the group.
b
dN/dS (ω) is the average ratio over sites under a codon model with one-ratio.
c
Double asterisks represent P < 0.01 for chi-square (χ2) test, while single asterisk represents P < 0.05.
d
ω is estimated under model M8; p1 is the inferred proportion of positively selected sites; p and q are the parameters of the beta distribution.
e
The amino acid, which is listed in positively selected position, had a posterior probability > 0.95 under M8.