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File:Metulodontia-Maximum-Likelihood.svg

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Figure: Molecular Phylogenetic analysis of Metulodontia by the Maximum Likelihood method
The evolutionary history was inferred by using the Maximum Likelihood method based on the Kimura 2-parameter model [1]. The tree with the highest log likelihood (-5311.8139) is shown. The percentage of trees in which the associated taxa clustered together is shown next to the branches. Initial tree(s) for the heuristic search were obtained by applying the Neighbor-Joining method to a matrix of pairwise distances estimated using the Maximum Composite Likelihood (MCL) approach. A discrete Gamma distribution was used to model evolutionary rate differences among sites (5 categories (+G, parameter = 0.4787)). The rate variation model allowed for some sites to be evolutionarily invariable ([+I], 56.3336% sites). The tree is drawn to scale, with branch lengths measured in the number of substitutions per site. The analysis involved 17 nucleotide sequences. All positions with less than 95% site coverage were eliminated. That is, fewer than 5% alignment gaps, missing data, and ambiguous bases were allowed at any position. There were a total of 1379 positions in the final dataset. Evolutionary analyses were conducted in MEGA6 [2]


1. Kimura M. (1980). A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16:111-120.
2. Tamura K., Stecher G., Peterson D., Filipski A., and Kumar S. (2013). MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution30: 2725-2729.


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current20:40, 9 September 2014Thumbnail for version as of 20:40, 9 September 2014495 × 414 (21 KB)Thkgk{{Information |Description= '''Figure: Molecular Phylogenetic analysis of ''Metulodontia'' by the Maximum Likelihood method'''<br/> The evolutionary history was inferred by using the Maximum Likelihood method based on the Kimura 2-parameter model [1]....

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