amino acid substitution matrix file formats

Hi Agnieska.

Following our conversation about matrices - either hard-coded or stored in files, I finally found the relevant web site I was trying to locate with regard to text file representation of matrices.

The web site is the 'AAindex' database:

Here's the BLOSUM62 matrix as an aaindex file:



J. B. Procter (JALVIEW/ENFIN) Barton Bioinformatics Research Group
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