Sentence examples for based on local alignments from inspiring English sources
Here, 30 low-level similarity measures (features) are derived that are based on local alignments of DNA-binding domains, flanking regions of DNA-binding domains, the alignment of secondary structure predictions and taxonomic distances.
Therefore, their identification through computational methods requires strategies based on local alignments.
Our method is based on local alignments and discontiguous sequence similarity.
Second, from the non-coding regions of every group of orthologous genes, we selected several 1 kb long "orthologous" regions based on local alignments and discontiguous sequence similarity (See Methods).
In the rest of this sub-section we evaluate the repeat filtering step, the effect of using the PV in Compart matching, and compare the results of the compartmentization based on local alignments computed with different methods.
BLAST searches are based on local alignments that may only use parts of each sequence (e.g. conserved regions) for classification, lack a hierarchy classification procedure and results can be difficult to interpret [ 7, 17] especially when results show hits for multiple, different taxa.
The resulting labels where manually corrected where necessary, using both the T1 and the T2 weighted scans, to improve the results based on local alignment.
edgeR was also not included in further comparisons due to lack of clear definition of uniquely mapped reads for ION-Torrent and 454 datasets which were mapped using tools based on local alignment algorithms.
Although the algorithm used in BLAST comparisons is based on local alignment, the relevance of this results is supported by the fact that more than 50% of the hits obtained for the contigs (16 489 of the 32 592) and over 83% of the hits obtained for the singletons (7770 out of the total 9311) extended over more than 75% of their lengths.
