Pairwise alignment of protein sequences
Paste protein sequences in Fasta format:

Output width: Output order: Output format:

Pairwise alignment type:

Pairwise alignment parameters (SLOW)
Protein weight matrix:
Gap openig penalty:
Gap extension penalty:

Pairwise alignment parameters (FAST)
K-tuple (word) size:
Number of top diagonals:
Window size:
Gap penalty:
Scoring method:

Multiple Alignment Parameters
Weight matrix:
Gap opening penalty:
Gap extension penalty:
Residue-specific gap penalties OFF:
Hydrophilic gaps OFF:
Hydrophilic residues:
Percent of identity for delay:
Gap separation distance:
No end gap separation penalty:

The above macro is based on ClustalW algorithm.
Copyright © 2004 FAROOQ LABORATORY