Table 2.

Percentage of accurate topologies

Strategy/simulation set	c 0	c 1	c 2	c 3
AIC	50.51	50.44	50.64	36.50
AICc	50.51	50.47	50.58	36.60
BIC	50.44	50.47	50.69	35.80
DT	50.47	50.44	50.68	35.70
dLRT	50.29	50.26	50.78	35.50
BF	50.62
GTR+I+G	50.82	50.94	51.11	36.40
JC	48.31	48.81	50.33	35.40
True model	50.17

The table presents the percentages of correctly inferred topologies of every simulation set by each reconstruction strategy. The top six rows represent the accuracy obtained by reconstruction with the models selected by the various model selection criteria. The next two rows represent the reconstructions of the GTR+I+G and JC models regardless of model selection. The true model represents reconstruction with the model used to simulate each dataset, and therefore is applicable to simulation set c₀ only. BF criterion was not run for the complex simulation sets c₁-c₃ (see Methods). The percentages of simulation set c₃ were computed over a subset of 1000 datasets that represent coding sequences