AlphaMALIG 1.1 – Aligns Sequences in a given Alphabet

AlphaMALIG 1.1

:: DESCRIPTION

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.

::DEVELOPER

 the Algorithmics and Genetics Group 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • C compiler

:: DOWNLOAD

  AlphaMALIG

:: MORE INFORMATION

Alphabet – Find Groups of Amino Acids that Co-occur in Columns Frequently

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.