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Figure 1 | BMC Evolutionary Biology

Figure 1

From: Phylogenetic inference under varying proportions of indel-induced alignment gaps

Figure 1

The model tree. The 16-taxon balanced tree, obtained from Ogden and Rosenberg (2006), was used as a model tree for the simulations of DNA evolution, the results of which we have presented in this paper. Two more sets of simulations were also done – one with a random-branching tree and the other with a pectinate tree (both 16-taxon too), but the results from these analyses have not been shown, for reasons explained in the text. The scale given in the figure refers to the number of nucleotide substitutions per site. During simulation, the total number of substitutions to be made for a given branch, for a given parameter-combination, was obtained as the product of the branch length in the model tree, the rate multiplier and the sequence length. Values from the latter two parameters were obtained from Additional file 1.

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