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The sum of epistatic interactions gradually increases when duplicate gene pairs evolved more sequence divergence.
The split between the LFG and the outgroups, as well as all splits among outgroup taxa were well supported and based on 3.2% or more sequence divergence.
In fact, ELN orthologs in mammals show more sequence divergence than expected for a gene with a critical role in development.
Moreover, A. rufa may have more sequence divergence that would result in fewer shared restriction sites and thus less mapable markers obtained.
It has been debated whether newly predicted miRNAs are functional or not, especially because they tend to have lower expression and more sequence divergence than known miRNAs (Lu et al. 2008; Liang and Li 2009).
In addition, we generated a C-terminal-truncated silent mutant LAMR construct structurally homologous to the Archaeoglobus fulgidus S2 ribosomal protein and missing the C-terminal 75 residues of LAMR, which displays more sequence divergence.
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Both these species have reportedly more intraspecies sequence divergence [ 9, 14– 16].
They also encode a putative holin (Gp21) with more pronounced sequence divergence.
A strong response was observed against Muguga Tp1, but there was no detectable response to Marikebuni Tp1 (Fig. 6B) The Tp2 nucleotide sequences showed more extensive sequence divergence.
Gene tatA has a paralog tatE (bd2196 in HD100), [ 23] likely allowing more rapid sequence divergence of tatA as evidenced by the high omega score.
Our results revealed that all gene content variation between the two ST60 genomes was introduced by homologous recombination at the conserved flanking genes, and 94.25% or more of sequence divergence was caused by homologous recombination.
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