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ClustalW is a widely used sequence alignment tool.

Paste your sequence into the window :
(7 input formats are accepted: FASTA,NBRF/PIR, EMBL/Swiss-Prot, GDE, Clustal, GCG/MSF, RSF)

File Pasted


Data example in the Fasta format

Email address (optional field; the results will be sent to you by email)

Multiple Alignment options
Pairwise alignments Slow  Fast  Use Negative Matrix
Gap Opening (0-100) Gap Extention (0-100)
Delay Divergent Sequence (%) DNA Transition Weight (0-1)
Protein weight matrix DNA weight matrix

Slow Pairwise Alignment parameters
Gap opening penalty (0-100) DNA weight matrix
Gap extension penalty (0-100) Protein weight matrix

Fast Pairwise Alignment parameters
Gap Penalty (1-500) K-Tuple Size (1-2)
Top Diagonals (1-50) Windows Size (1-50)

Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG. (2007). Clustal W and Clustal X version 2.0. Bioinformatics, 23, 2947-2948.

This site has been visited 2359053 times since Friday, November 25, 2005.

Boc, A., Diallo, Alpha B. and Makarenkov, V. (2012), T-REX: a web server for inferring, validating and visualizing phylogenetic trees and networks, Nucleic Acids Research, 40(W1), W573-W579.

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