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This trend is expected as more distant genomes are expected to share fewer repeats with O. sativa.
These assumptions are too strict when considering more distant genomes (see Supplementary Material S1).
However, for more distant genomes, exons may be inserted and removed from genes, while splice variants remain conserved (Long et al., 2003).
Consequently, it seems more reasonable to detect synteny between more distant genomes by considering the protein level at the resolution of exons, rather than the genes.
Since we select directly the sequences that respect this constraint, our approach achieves a significative reduction of the universe of solutions and may be able to deal with more distant genomes than the original algorithm.
Consistent with this example, they suggested that "[p]erhaps the patterns of the cryptic variation of the mutation rate are subject to evolution and, thus, become more and more different in more and more distant genomes".
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It seems that the TREx metric is better than mldS in the more distant genome pairs, for example, human:mouse and human:rat, while worse than mldS in a closer genome pair, like mouse:rat.
There are eight TaOrs, two TaGrs, and three TaIrs whose (co- orthologs are missing in the Ae. aegypti genome, but co- orthologsin the other two, more distare missingo genomes, indicatheg lineAee-specific loss in Ae. aegypti.
Phylogenetic analysis clearly differentiated the STOP1 like proteins from monocots in a group and also suggested that genome A and B are more distant from genome D [Additional file 2], as genome D was incorporated recently in comparison to the A and B genomes in bread wheat [ 42].
Although the reference genome need not necessarily be the same species as the surveyed populations, more distant reference genomes will reduce mapping efficiency.
Exons of this transcript exhibited sequence identity between human and chimp, but not in more distant primate genomes.
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more distant neighbours
more archaeal genomes
more distant settlements
more distant zones
more distant parallels
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more distant environments
more distant memories
more distant populations
more distant quarters
more distant levels
more distant horizons
more complex genomes
more distant applications
more distant synthesizers
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