Clustalw Multiple Sequence Alignment
Click here for information on the parameters
Click here for the help file

Note: All job files will be cleared at the end of every week.

Please input the sequences to be aligned in FASTA format
General Settings
Alignment Type:
   Fast Pairwise Alignments
   Slow Pairwise Alignments
   Multiple Alignments

Protein alignment with negative values in matrix? Yes No

Alignment Output Format:
   Default format output
   GCG/MSF format output
   GDE format output
   PHYLIP format output
   PIR format output
   NEXUS format output

Fast Pairwise Alignments
K-tuple (word) size:
No. of best diagonals:
Window size:
Gap penalty:
Slow Pairwise Alignments
Protein weight matrix:
   BLOSUM
   PAM
   GONNET
   IDENTITY MATRIX

Gap open penalty:
Gap extension penalty:

Multiple Alignments
Protein weight matrix:
   BLOSUM
   PAM
   GONNET
   IDENTITY MATRIX

Gap open penalty:
Gap extension penalty:
End gap separation penalty? Yes No
Gap separation penalty range:
Residue-specific gaps off? Yes No
Hydrophilic gaps off? Yes No
% ident. for delay: %

Please be patient as the alignment will take some time.