On-line help for CLUSTAL W, version 1.7, July 1997.

This is the on-line help you can find by typing H in the menus of clustalw. This help was htmlized by François Jeanmougin. For full details of usage and algorithms, please read the CLUSTALW documentation.

Toby Gibson
Des Higgins
Julie Thompson

EMBL, Heidelberg, Germany.

General help for CLUSTAL W

Multiple alignments

Pairwise alignment parameters

Multiple alignment parameters

Protein gap parameters

Output format options

Profile and structure alignments

Secondary structure / gap penalty masks

Secondary structure / gap penalty mask output option

Phylogenetic trees

Tree output format options

Choosing protein weight matrix

Command line parameters