ClustalW Multiple Alignment


Paste your sequences (in any format) in the box below:

Or upload a local sequence file:

Locate sequences


Notice for users
Please make sure that you submit sequences only to the server. Do not mix nucleotide and protein sequences in the input file!

Pairwise alignment parameters

Fast algorithm
Gap penalty
Window size
No. of top diagonals
Slow algorithm
Gap Open Penalty
Gap Extension Penalty
Protein weight matrix

Multiple alignment parameters

Weight matrices
Protein weight matrix
Alignment output format
Sequence order
Additional output format
Gap penalties
Gap Open Penalty
Gap Extension Penalty

Phylogeny parameters

Calculate phylogenetic tree

Yes No

Distance parameters
Ignore positions with gaps
Yes No
Use Kimura's correction
Yes No
Bootstrap the NJ tree Yes No
Number of replicates x
Show tree in Newick (PHYLIP) bracket notation
Yes No
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