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Miami is an outfit patched together with sticks and glue, with offensive alignments that could be a Regis question for $1 million.
Finally, we retained only those alignments that could be put consistently in-frame (with fewer than 0.1% internal stops), and that had an alignment length of at least 60 aa.
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Fibers in all scaffolds underwent alignment in response to strain; however, the rate and extent of alignment that could be achieved varied as a function of cross-linking.
The best alignment that could be made using the MultAlin program is shown in Figure 1c.
A striking observation was the high degree of alignment that could be obtained in these structures despite the fact that different crystallization conditions were used to obtain these data.
Only those alignment columns that could be aligned to the structure sequence were used in our subsequent analyses.
In the MSA field, some aligners, such as Kalign, TCoffee or Probcons, provide estimators of local alignment accuracy that could be used to identify unreliable regions and eliminate them from subsequent analyses.
The mapping results were used to generate an alignment file that could be utilized by Consed.
Vertebrate CenpI proteins reveal significant alignments to insect homologs that could be verified by reciprocal best-hit analyses.
The concatenated sequences yielded an alignment with 3,129 sites that could be compared among all strains.
The alignment contained all homologs that could be identified by BLASTx searches of the GenBank nr database as of Nov 2012.
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CEO of Professional Science Editing for Scientists @ prosciediting.com