The alignment method exploits the surface velocity obtained by a fluid as it flows off a spinning substrate.

Progressive alignment methods are efficient enough to implement on a large scale for many (100s to 1000s) sequences.

This is distinct from progressive alignment methods because the alignment of prior sequences is updated at each new sequence addition.

The Smith-Waterman algorithm is a general local alignment method also based on dynamic programming.

Multiple alignment methods try to align all of the sequences in a given query set.

When using direct alignment methods one might first calibrate one's images to get better results.

For this reason it is common for structural alignment methods to use by default only the backbone atoms included in the peptide bond.

Genomic data were scanned by alignment methods in GenBank.

Moreover, similar results have been obtained using non-global alignment methods [ 46].

The alignment method must also guarantee that the original Pfam multiple alignment remains unchanged when the query sequence is aligned to it.