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For an enterprise it is perhaps not attractive to conserve a particular type of material through product multiple lifecycles approach which is naturally abundant but extremely important if the material becomes critical.
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Both HMMER3 and PSI-BLAST [34] overcome this weakness by weighting mismatch penalties on the likelihood of a match for a given region (i.e. how conserved a particular region of the gene is).
The difference between orphan and non-orphan QIPP scores suggests that it might be possible to predict a priori how conserved a particular CDS might be using QIPP scores in the absence of homology.
Therefore, it is plausible that, as long as the recognition sequences are conserved, a particular site will not lose the ability to be edited, even though the C has been substituted by another base.
We also chose to examine the effect of position 86 as an example in which enzyme sequence is not conserved, but a particular property difference (in this case charged versus neutral) is conserved.
Thus, to expand our understanding of lineage-specific evolution, we identified HCNSs that were conserved in a particular lineage (either in primates or in rodents) and compared characteristics of the lineage-specific HCNSs with those conserved among mammals and vertebrates.
The repeat sequence is highly conserved within a particular CRISPR locus.
For instance, a residue that is conserved in a particular subgroup and is important for interaction with a specific partner, will have a high score in GROUPSIM, and mutation will probably result in lack of function.
The signatures were found to 98-100% identical and conserved in a particular species.
Hence, a site with a low functional entropy but high AA entropy suggests that it is conserved for a particular physicochemical property but not a particular residue.
Such comparisons are valuable in order to find genes for which the function is conserved for a particular process that may not be identified by other methods.
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CEO of Professional Science Editing for Scientists @ prosciediting.com