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Table 2 Summary statistics for detecting selection using branch-site models of PAML

From: Gene duplication and an accelerated evolutionary rate in 11S globulin genes are associated with higher protein synthesis in dicots as compared to monocots

Foreground branch Null hypothesis Alternative hypothesis
  -ln L Estimated parameters -ln L Estimated parameters
Branch A 46859.30 p0 = 0.66, p1 = 0.28 (p2+p3 = 0.06) 46851.6** p0 = 0.69, p1 = 0.27 (p2+p3 = 0.04)
   ω0 = 0.23, ω1 = ω2 = 1   ω0 = 0.23, ω1 = 1.00, ω2 = 999
Branch B 46854.00 p0 = 0.53, p1 = 0.22 (p2+p3 = 0.25) 46837.66** p0 = 0.63, p1 = 0.26 (p2+p3 = 0.11)
   ω0 = 0.23, ω1 = ω2 = 1   ω0 = 0.23, ω1 = 1.00, ω2 = 56.08
Branch C 46852.38 p0 = 0.53, p1 = 0.21 (p2+p3 = 0.36) 46831.76** p0 = 0.64, p1 = 0.26 (p2+p3 = 0.10)
   ω0 = 0.23, ω1 = ω2 = 1   ω0 = 0.23, ω1 = 1.00, ω2 = 526.55
Branch D 46859.11 p0 = 0.61, p1 = 0.26 (p2+p3 = 0.13) 46842.30** p0 = 0.68, p1 = 0.27 (p2+p3 = 0.05)
   ω0 = 0.23, ω1 = ω2 = 1   ω0 = 0.23, ω1 = 1.00, ω2 = 999
Branch E 46859.33 p0 = 0.70, p1 = 0.30 (p2+p3 < 0.01) 46859.33 p0 = 0.70, p1 = 0.30 (p2+p3 < 0.01)
   ω0 = 0.23, ω1 = ω2 = 1   ω0 = 0.23, ω1 = ω2 = 1
  1. Note: ** P <0.01, calculated from LRT.