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"Even if faith is superior to reason there can never be a true divergence between faith and reason, since the same God who reveals the mysteries and bestows the gift of faith has also placed in the human spirit the light of reason.
Only the FIR function accurately estimated the true divergence times and appeared robust against the abrupt change (Figure 4B).
However, microsatellite loci are known to have much slower rates of evolution for some insects, which would make true divergence times much older.
The program adopts soft bounds, so that the probability that the true divergence time is outside the bounds is small but not zero [43].
Moreover, despite the poor fossil records of tetraodontids, a fossil record of Sphoeroides from the Pliocene (5 MA) [93] was used as a calibration for the root node of Clade B (Figure 4) A softbound version of the program (MCMCTREE) was used, so that probabilities of the true divergence time that fell outside the maximum and minimum bounds were not zero [94].
This simple approach facilitates analyses of functional consequences and changes in cellular behavior that may arise from true divergence.
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Although Tajima's 1D test cannot correct for saturation, apparent divergences are not expected to be gross under-estimates of true divergences for recently diverged taxa.
Finally, the estimates could reflect a true difference in divergence between mtDNA and nuclear genes.
These sets represent either false orthologs or true evolutionary divergence among gene start sites.
Instead, many of these might be examples of true evolutionary divergence.
Therefore, without considering ancestral polymorphisms, we tend to overestimate the true species divergence.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com