TABLE 3

Maximum-likelihood estimates of θsilent per nucleotide

Modelθ1 (no. loci)θ2 (no. loci)θ3 (no. loci)θ4 (no. loci)MLLRTPb
M10.0092 (195)−684.27
M20.0041 (128)0.0213 (67)−485.77397.000.000* (M1 vs. M2)
M30.0021 (63)0.0072 (82)0.0253 (50)−441.11 89.320.104 (M2 vs. M3)
M40.0011 (46)0.0051 (64)0.0122 (58)0. 0344 (27)−422.86 36.490.671 (M3 vs. M4)
M195a−388.69 68.330.959 (M4 vs. M195)
  • * Significant P-value (P < 0.05).

  • a In the model with 195 different θ's, the value of each θ is not shown.

  • b Probability calculated with a LRT distribution obtained by coalescent simulations.