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Divergence is the evolutionary process that gives rise to differences; constraint is the brake purifying selection puts on divergence.
AlignMiner is a Web-based application for detection of conserved and divergent regions in alignments of conserved sequences, focusing particularly on divergence.
Moreover, new results on divergence measures are given.
The transformation presented in this paper is based on divergence theorem.
The duplicated region is approximately 2 Mb in length and based on divergence between orthologous genes appears to have occurred approximately six mya (Jiang et al. 2007).
Transformation frequencies were not dependent on divergence between donor and recipient alleles [16].
At the nLTRS locus, substantial differentiation between M. rhizophorae and M. eastropacensis (see Figure 1B) suggested a much higher rate than estimation based on divergence in Chthamalus alone.
Therefore, we chose 0.20 as an appropriate value of standard deviation, but we acknowledge that the uncertainty on divergence times may be higher than shown by our results.
Six fossil calibrations were taken into account as prior assumptions on divergence times (diamonds in Fig. 3, Table S4) and simultaneously optimized with other parameters describing the phylogeny.
Thus, the practice of identifying genetically distinct populations based on divergence in neutral DNA may lead to a taxonomy that ignores evolutionarily important, rapidly evolving, locally-adapted populations.
This, in turn, shows that using the sequence bootstrap to infer errors on divergence times [17], [18] is not comprehensive and therefore the CIs are too narrow.
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