Variance and covariances of the numbers of synonymous and nonsynonymous substitutions per site |
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Authors: | Ota T; Nei M |
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Institution: | Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park 16802. |
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Abstract: | Nei and Gojobori (1986) developed a simple method to estimate the numbers
of synonymous (ds) and nonsynonymous (dN) substitutions per site. In the
present paper, we have developed a method for computing variances and
covariances of ds's and dN's and of the proportions of synonymous (ps) and
nonsynonymous (pN) differences. We also have developed a method for
computing the variances of mean dS, dN, pS, pN, without constructing a
phylogenetic tree of the genes. We have conducted computer simulations
based on simple evolutionary models and have shown that the new method
gives good estimates of variances and covariances.
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