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Therefore, for ortholog identification, we accepted trees with alternative branching patterns within the two major clades.
The branching patterns within the conifer genes within these clades are in accordance with patterns reported previously for these species [ 1].
Wägele et al. (2008) provided branching patterns within the Opisthobranchia, and Colgan et al. (2007) provided placement for additional families not included by Wägele et al. (2008).
Branching patterns within the genetic clusters reflect neutral coalescent processes occurring within species (Kingman 1982), whereas branching among genetic clusters reflects the timing of speciation events (Yule 1924).
These results were partially in congruence with phylogenetic analysis i.e. P. aeruginosa strains making a tight cluster unlike stutzeri strains which showed distinct branching patterns within the cluster.
An analysis of consensus branching patterns within the set of individual core gene trees was performed to assess the level of support for the topology of the concatenated phylogeny at the individual gene level.
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The branching patterns within these clusters matched the phylogenetic relationships among the six teleost species analysed in this study [ 37].
RBS is a multistage sampling procedure, which defines a unidirectional random walk along the natural branching pattern within the crown of a tree.
For example, the common ancestor of species X, Y and Z is believed to be 1 MY old, but the branching pattern within the clade is unknown.
However, the branching pattern within the TUC clade, including the chlorarachniophytes, was not resolved by ML analysis.
The various analyses and datasets give entirely different hypotheses of the major branching pattern within the subfamily.
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