Because Sanger SNPs were identified by alignment to the reference sequence, regions that could not be aligned were inaccessible to SNP discovery and thus not comparable with array genotypes.
Homology determined by alignment to each genome with reciprocal alignment by BLASTP.
Pintilie, G. D., Zhang, J., Goddard, T. D., Chiu, W. & Gossard, D. C. Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions.
An open reading frame with in-frame triplets coding for start (AUG) and stop (UGA) sites for MTT3 was identified by alignment to the MTT1 sequence.
The outcome of these successive processes is a contiguous Bridged and Extended Sequence (BES) which is validated by alignment to the genome scaffold sequences (Figure 1, E).and used to generate the gene model's corrected structural annotation.
To reach a consensus between the two analyses so that ESTs selected by alignment to vector or primer sequences could be rejected, only ESTs that matched the same cDNA clones in both analyses were deemed appropriate for further consideration.
Isoform-level alignment is also improved by alignment to CAST.
The physical order of these markers was determined by alignment to the reference BTx623 genome sequence.
The order of the remaining contigs was determined by alignment to close taxonomic relatives with MAUVE.
We further classified Streptococcus and Staphylococcus sequences by alignment to a curated reference database.
Contigs were translated by alignment to the local database using blastx to identify open reading frames.
