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The TrN+Γ [117] model of sequence evolution was used.
The model of sequence evolution was determined by MrModeltest software v. 2.2.
The optimal model of sequence evolution was identified using hierarchical likelihood ratio tests in MrModeltest 2.2 [12.2
The model of sequence evolution used was the generalized time-reversible (GTR) model with gamma-distributed rate variation.
Bayesian analyses, using the GTRIG model of sequence evolution as selected by MrAIC [59], were implemented in MrBayes 3.1.1 [60].
The HKY+I model of sequence evolution (see Methods Supplement file) was selected and found to have an acceptable absolute fit to the data (p = 0.13).
We implemented the same model of sequence evolution as in the Bayesian phylogenetic analyses and a relaxed molecular clock with uncorrelated rates among lineages.
model of sequence evolution.
To identify the model of sequence evolution that best fit the data, we used jmodeltest 0.0.1 [ 78], which suggested the TN93 + G + I model of sequence evolution.
Parametric bootstrapping can be carried out when we assume an explicit model of sequence evolution.
For nucleotide sequences, the GTR+I+G model of sequence evolution was used.
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