LalnView is a graphical program for visualizing local alignments between two sequences (protein or nucleic acids). Sequences are represented by colored rectangles to give an overall picture of the similarities between the two sequences. Blocks of similarity between the two sequences are colored according to the degree of identity between segments.
The program is also able to display sequence features (active site, domain, motif, propeptide, exon, intron, promoter, etc.) along with the alignment. This allows one to make the link between sequence similarity and known functions.