Tools
pAlign
Pairwise alignment of protein sequences
Paste protein sequences in Fasta format:
>Seq1 >Seq2
Output width:
Output order:
aligned
input
Output format:
ClustalW
GCG
GDE
PHYLIP
PIR
Pairwise alignment type:
FAST
SLOW
Pairwise alignment parameters (SLOW)
Protein weight matrix:
BLOSUM
PAM
GONNET
ID
Gap openig penalty:
Gap extension penalty:
Pairwise alignment parameters (FAST)
K-tuple (word) size:
1
2
Number of top diagonals:
Window size:
Gap penalty:
Scoring method:
Percentage
Absolute
Multiple Alignment Parameters
Weight matrix:
BLOSUM
PAM
GONNET
ID
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