Muscle Alignments

Muscle is a program for the alignment of many protein sequences.

Edgar, Robert C. (2004), MUSCLE: multiple sequence alignment with high accuracy and high throughput
Nucleic Acids Research 32(5), 1792-97.

This alignment method is applied to the selected region, if any, or the whole sequence set when the Web Service→Alignment→Muscle Protein Sequence Alignment menu item is selected.