The problem of multiple sequence alignment is too big for computers to handle.

An image of the structurally similar region and sequence alignment is shown on the right.

However, the biological relevance of sequence alignments is not always clear.

To save space, not all of these orthologs are included in the above multiple sequence alignment.

The sites for all four organisms are highlighted on the following multiple sequence alignment.

Handel is a suite of programs for multiple sequence alignment.

A variant of this sequence alignment is used in the sequencing process itself.

Multiple sequence alignments can be used to create a phylogenetic tree.

The sequence alignment and template structure are then used to produce a structural model of the target.

The similarity score is often based on sequence alignment.