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ALPHAMALIG(ALPHAbet Multiple ALIGnment) is a tool which allows you to align many but no more than 200 sequences.
These sequences will be formed by characters of a finite alphabet. All you have to do is upload a file with the sequences in FASTA format and another file with the information of the alphabet. A limitation of ALPHAMALIG is that the original sequences must not be longer than 2000 characters. In fact, sequences shorter than 1800 chracters are strongly recommended. The web service will be no longer available but a tar file with the source code and the running files for linux can be downloded here . 
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