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© Research
Publication : Computer applications in the biosciences : CABIOS

MASH: an interactive program for multiple alignment and consensus sequence construction for biological sequences

Member: Anne Danckaert
Scientific Fields
Diseases
Organisms
Applications
Technique

Published in Computer applications in the biosciences : CABIOS - 01 Apr 1991

Chappey C, Danckaert A, Dessen P, Hazout S

Link to Pubmed [PMID] – 2059844

Comput. Appl. Biosci. 1991 Apr;7(2):195-202

This paper presents a method for the multiple alignment of a sequence set. The MASH algorithm uses a non-redundant database of common motifs and an ‘alignment priority’ criterion that depends on the length and the occurrence frequency of the patterns in the set of sequences. This user-defined criterion allows the determination of the series of the patterns to be aligned. This program is applied to a fragment of envelope gene env gp120 for 20 isolates of the immunodeficiency virus. The multiplicity of alignments obtained by modifying the criterion parameters reveals different aspects of similarity between the sequences.