Belvu is an X-windows viewer for multiple sequence alignments. One of the main advantages of Belvu is that it has an extensive set of modes to color the residues. Belvu further supports some simple editing commands for rows and columns, but is not intended as a full editor. For actually editing the alignment, use your favorite alignment editor or Emacs.
Alignment is in 'raw' format.
Sort sequences alphabetically. Read in file of scores. A column with scores will automatically appear after the coordinates. Set window title. Read file with matching sequences segments.