consambig
Function
Description
cons calculates a consensus sequence from a multiple
sequence alignment. To obtain the consensus, the amino acid residue
or nucleotide at each position is compared to the possible ambiguity
codes. The consensus sequence uses the minimum ambiguity code match.
Algorithm
The ambiguity codes are defined in local data files. consambig
uses these files to determine which codes match all residues or
nucleotides in the input sequences at each position.
Usage
Command line arguments
Input file format
The USA of a set of aligned sequences.
Output file format
The output consists of a sequence file holding the consensus sequence.
Data files
consambig uses the standard files Ebases.iub and Eresidues.iub in
the EMBOSS data directory.
Notes
None.
References
None.
Warnings
None.
Diagnostic Error Messages
None.
Exit status
It always exits with status 0.
Known bugs
None.
Author(s)
History
Target users
Comments