T3E gene | Number of strains | Alignment length (nt) | Population recombination rate,N e r(PLPT)a | LRT statistic values for codon model pairsb | Proportions of sites in different selection regimesc | ||||||
---|---|---|---|---|---|---|---|---|---|---|---|
 |  |  |  | M0 vs M3 | M1a vs M2a | M7 vs M8 | M8a vs M8 | Strict negative (ω< 0.15) | Relaxed negative (0.15 <ω<0.9) | Neutral (0.9<ω<1) | Positive (ω>1) |
RipAA | 10 | 906 | 10 (0.33) | 134.9 | 6.2 | 14.4 | 13.1 | 38% (ω=0.04) | 56% (ω=0.48) | 0% | 6% (ω=2.9) |
RipAJ | 11 | 936 | 2 (0.54) | 150.5 | 7.2 | 11.9 | 13.3 | 46% (ω=0.04) | 46% (ω=0.49) | 9% | 7% (ω=3.1) |
RipAT | 9 | 1764 | 0 (0.04) | 191.1 | 11.5 | 17.3 | 13.3 | 38% (ω=0.04) | 48% (ω=0.54) | 10% | 5% (ω=3.3) |
RipAW | 6 | 1359 | 6 (0.00) | 177.6 | 9.4 | 15.0 | 20.6 | 38% (ω=0.02) | 48% (ω=0.51) | 10% | 5% (ω=4.9) |
RipAP | 7 | 2400 | 0 (0.22) | 148.6 | 18.2 | 21.7 | 27.6 | 59% (ω=0.02) | 29% (ω=0.48) | 10% | 2% (ω=10.0) |
RipD | 11 | 1971 | 3 (0.18) | 266.5 | 7.2 | 16.7 | 12.7 | 38% (ω=0.04) | 47% (ω=0.47) | 9% | 6% (ω=2.8) |
RipG7 | 10 | 2016 | 10 (0.00) | 561.6 | 28.1 | 37.6 | 43.0 | 46% (ω=0.04) | 28% (ω=0.59) | 19% | 7% (ω=3.4) |
RipH3 | 9 | 2229 | 4 (0.81) | 145.7 | 19.5 | 29.5 | 25.1 | 29% (ω=0.07) | 57% (ω=0.56) | 10% | 4% (ω=3.8) |
RipS7 | 7 | 9570 | 0 (0.00) | 329.0 | 30.4 | 34.3 | 42.2 | 48% (ω=0.03) | 38% (ω=0.44) | 10% | 5% (ω=4.0) |