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The songs of mainland goldcrests vary only slightly across their range and consist of a single song type, but much more divergence has occurred in the isolated Macaronesian populations.
Most species showed little intra-specific variation (adjusted mean = 0.21%), but nine species included two or three lineages showing much more divergence (2.19 6.52%) and likely represent overlooked species complexes.
There was much more divergence with regards to where the project should be based, with 67.1% in the qualitative versus 15.0% in the quantitative strand proposing that it should be hospital-based.
Here there was much more divergence of opinions, where only Egypt still had a high percentage of respondents agreeing with this position (83.8%), whereas in Korea 69.5%, in India 69.2%, in China 63.7% and in Japan 47.5% agreed with this proposal.
The Staphylococcus strains had much more divergence from one another than those of Salmonella or Yersinia; within S. aureus, the divergence was also much greater than that of Salmonella, However, some of the S. aureus strains did cluster together as tightly as those of S. typhimurium (Additional file 9: Table S9 and Additional file 10: Table S10; Figure 5).
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Considering that the gene duplication of CYP1A1/2 occurred more than 300 Mya and the divergence between primates and rodents occurred around 80-120 Mya, paralogous genes should have much more diverged than human-mouse orthologs.
Alternatively, diversity within Caenorhabditis could represent less of nematode history (i.e. a much more recent divergence) than previously appreciated.
Phylogenetic evidence suggests a much more ancient divergence of Peromyscus from laboratory mice (Mus) and rats (Rattus) than that separating latter two.
It is unclear how accurate divergence estimates can arise from mostly misaligned sequences, particularly for SATé, which has similar levels of error as other MSAMs but much more accurate divergence estimates.
Consistent with this, in all examined cases, plant mitochondrial genes transferred to the nucleus have accumulated much more sequence divergence than their homologs still present in the mitochondrion (e.g., [ 30, 31]).
Finally, we also simulated datasets with much more recent divergence between two populations (T = 0.005) under the largest sample sizes considered in our previous simulations (n = 30 per population).
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