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Table 2 atpB dataset: estimates for the first-order Markov chain distribution at the ancestral root sequence (for the GTR123123+CP123+F123+FF16+3F model).

From: Context-dependent codon partition models provide significant increases in model fit in atpB and rbcL protein-coding genes

  Root
X π X|A π X|C π X|G π X|T
A 0.5049
[0.38; 0.61]
0.4089
[0.28; 0.52]
0.0382
[0.00; 0.13]
0.0480
[0.00; 0.16]
C 0.1018
[0.00; 0.31]
0.2481
[0.01; 0.75]
0.1993
[0.01; 0.55]
0.4507
[0.06; 0.79]
G 0.0402
[0.00; 0.15]
0.1610
[0.00; 0.52]
0.1088
[0.01; 0.40]
0.6899
[0.16; 0.94]
T 0.1010
[0.01; 0.25]
0.3925
[0.22; 0.54]
0.4490
[0.29; 0.59]
0.0575
[0.00; 0.20]
  1. Shown are mean estimates of 100.000 MCMC iterations, discarding the first 20.000 iterations as the burn-in, and the corresponding 95% credibility intervals. Despite the wide 95% credibility intervals, the estimates show why such a first-order dependence is useful.