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The very narrow width of the lines reflects the high quality of alignment reached in this case.
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Nevertheless, we observed that the consistency-based approach may not offer alone the highest quality of alignment.
Visual inspection using IGV genome browser (Robinson et al. 2011) also revealed the high quality of the resulting alignments.
Validation was also repeated using the final gapped nucleotide alignment and the PFAM family alignment to ensure high quality of the sequence data.
The Blast score ratio (Vilella et al. 2009) takes into account the bit score for the protein pair A B as relates to the self-score of each protein gets when BLASTed against itself, where (1) A larger BSR represents a higher quality of protein alignment in terms of length and sequence similarity.
Given the potentially high quality of the dolphin genome, and the accurate alignments generated in our analyses, this should have improved our identification of PSGs and PSSs and resulted in a low number of false positives.
The nanorods show a good vertical alignment and similar length indicating high quality of H-TiO2 nanorod arrays.
We calculated a consensus sequence from 42 NLPs proteins, predicted its secondary structure and obtained a high quality alignment of this structure and conserved residues with the two Cupin superfamily motifs.
GO annotations were retrieved using high quality multiple alignment of complete sequences computed for each protein.
These databases contain only sets of protein sequences and, as a reference, high quality alignments of these sets.
Most of our problems were inherent in attempting to generate high quality alignments of short sequences that are only distantly related to known ss-rRNA genes.
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CEO of Professional Science Editing for Scientists @ prosciediting.com