Alphabet

:: DESCRIPTION

Alphabet takes a database of aligned protein sequences in BLOCKS+ format and examines the alignments column-wise looking for groups of amino acids that co-occur in columns more frequently than expected based on overall amino acid composition. These groups of amino acids can form a reduced alphabet for building sequence motifs (eMOTIFs) or for detecting correlations between columns of amino acids (MCSeq).

:DEVELOPER

 The Brutlag Bioinformatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

• Linux
• C Complier

:: DOWNLOAD

 Alphabet

:: MORE INFORMATION

Citation:

Wu, T. D. and Brutlag, D. L. (1996).
Discovering Empirically Conserved Amino Acid Substitution Groups in Databases of Protein Families.
ISMB-96, 3, 230-240.