From: New insights into the evolutionary history of plant sorbitol dehydrogenase
Model | np | l = ln L | Estimates of parameters | Positively selected sites |
---|---|---|---|---|
M0: one-ratio | ||||
w(mono)=w (Aer)=w(sdhC1)=w(sdhC2) | 1 | -30147.4 | w(mono)=w(Aer)=w(sdhC1)=w(sdhC2)=0.10492 | Not Allowed (NA) |
Branch-specific models | ||||
w(mono)=w(Aer)=w(sdhC1)≠w(sdhC2) (two ratios) | 2 | -30141.1 | w(mono)=w(Aer)=w(sdhC1)=0.10415, w(sdhC2)=859.33956 | NA |
w(mono)≠w(Aer)≠w(sdhC1)=w(sdhC2) (three ratios) | 3 | -30147.3 | w(mono)=0.10510, w(Aer)=0.10821, w(sdhC1)=w(sdhC2)=0.06935 | NA |
w(mono)≠w(Aer)≠w(sdhC1)≠w(sdhC2) (four ratios) | 4 | -30140.8 | w(mono)=0.10428, w(Aer)=0.09731, w(sdhC1)=0.0001, w(sdhC2)=999 | NA |
w(mono)=w(Aer)=w(sdhC1)≠w(sdhC2) (two ratios with w(sdhC2) fixed to 1) | 1 | -30141.4 | w(mono)=w(Aer)=w(sdhC1)=0.10424 (w(sdhC2)=1) | NA |
Site-specific models | ||||
M1:Neutral (2 site classes) | 2 | -29650.0 | p0=0.87775 (p1=1-p0=0.12225); w0=0.07628 (w1=1) | NA |
M2:Selection (3 site classes) | 3 | -29650.0 | p0=0.87775, p1=0.07499 (p2=1-p0-p1=0.04726); w0=0.07628 (w1=1), w2=1 | None |
Branch-site models (SDH Class II as foreground lineage) | ||||
Model A Null (4 site classes) | 3 | -29643.2 | p0=0.33951, p1=0.04783 (p2+p3=0.61266); w0=0.07544 | NA |
Model A (4 site classes) | 4 | -29640.9 | p0=0.82864, p1=0.11666 (p2+p3=0.0547), w0=0.07544 (w1=1), w2=132.6226 | Sites for foreground lineage: 42H,43F,112G, 113S,116T, 270Q (p > 0.99); |