clustalw

Not Rated
Description
This program performs an alignment of multiple nucleotide or amino acid sequences. It recognizes the format of input sequences and whether the sequences are nucleic acid (DNA/RNA) or amino acid (proteins). The output format may be selected from in various formats for multiple alignments such as Phylip or FASTA. Clustal W is very well accepted.

The output of Clustal W can be edited manually but preferably with an alignment editor like SeaView or within its companion Clustal X. When building a model from your alignment, this can be applied for improved database searches. The Debian package hmmer creates such in form of an HMM.
Associated Programs
SeaView Multiplatform interface for sequence alignment and phylogeny
Available deb Repositories (how-to add a respository)
Debian 32-bit 64-bit
stable 2.0.12-1 2.0.12-1
testing 2.1+lgpl-2 2.1+lgpl-2

Ubuntu 32-bit 64-bit
hardy 1.83-3ubuntu1 1.83-3ubuntu1
lucid 2.0.10-1 2.0.10-1
oneiric 2.1+lgpl-2 2.1+lgpl-2
precise 2.1+lgpl-2 2.1+lgpl-2

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