Additional file 5.

Trends in bootstrap support values and topologies for likelihood analyses of alignment partitions (tree-dependent). For tree-dependent site variability analyses, the following are shown: a) Distributions of bootstrap support values for all nodes. Circles represent median bootstrap support for each An partition size. b) Distribution of branch score metric (triangles) and partition metric (circles) values for tests of topological congruence between An and corresponding Bn data partitions. Partition metric values shown are 0.1× actual value in order to fit on same scale with branch score values.

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Parks et al. BMC Evolutionary Biology 2012 12:100   doi:10.1186/1471-2148-12-100