Words similar to alignment
Example sentences for: alignment
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The following files are available with the online version of this article: the e-values of the best matches for the initial BLASTX searches against bacteria, C. elegans and Drosophila for the WMi dataset (Additional data file 1), together with a mapping file (Additional data file 2) that gives the MI contig number associated with each filename; the best match and e-value for the BLASTX search of the WMj dataset against bacteria (Additional data file 3), C. elegans (Additional data file 4) and Drosophila (Additional data file 5); the e-value for the best match to bacteria, C. elegans and Drosophila resulting from a TBLASTX search for the NMi dataset (Additional data file 6), the NMj dataset (Additional data file 7), the NMh dataset (Additional data file 8), where a value of 100 indicates no match found; a text file with details of the data given in each of these dataset files (Additional data file 9); the alignment in Phylip format used to calculate the NodL tree (Additional data file 10); the alignment in Phylip format of the original sequences, before any manual adjustments were made (Additional data file 11); and a key giving the gi number listed in the alignment for each species (Additional data file 12).
The representative families were selected from the COG database according to the following criteria: i) at least 30 species are represented; ii) no more than two paralogs in any of the species; iii) no more than 1.2 paralogs per genome on average; iv) at least 100 positions in the alignment containing less than 30% of gaps.
Using multiple alignment and parsimony analysis of protein kinase catalytic domain sequences, the yeast protein kinases were categorized into subfamilies based on structural relatedness.
Alignment and determination of intron-exon boundaries
1) This alignment does not require any indels for alignment of KirBac's with most members of the Kv and KcsA-like families for the entire M1-P-M2 segments.
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