MAVID is a multiple sequence alignment

Multiple sequence alignment

A multiple sequence alignment is a sequence alignment of three or more biological sequences, generally protein, DNA, or RNA. In many cases, the input set of query sequences are assumed to have an evolutionary relationship by which they share a lineage and are descended from a common ancestor...

 program suitable for the alignment of large numbers of DNA sequences. The sequences can be small mitochondrial genomes or large genomic regions up to megabases long. The latest version is 2.0.4.

The program can be used through the MAVID web server or as a standalone program which can be installed with the source code.

Input/Output

This program accepts sequences in FASTA format

FASTA format

In bioinformatics, FASTA format is a text-based format for representing either nucleotide sequences or peptide sequences, in which nucleotides or amino acids are represented using single-letter codes. The format also allows for sequence names and comments to precede the sequences...

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The output format includes: FASTA format

FASTA format

In bioinformatics, FASTA format is a text-based format for representing either nucleotide sequences or peptide sequences, in which nucleotides or amino acids are represented using single-letter codes. The format also allows for sequence names and comments to precede the sequences...

, Clustal

Clustal

Clustal is a widely used multiple sequence alignment computer program. The latest version is 2.1. There are two main variations:*ClustalW: command line interface*ClustalX: This version has a graphical user interface...

, PHYLIP

PHYLIP

PHYLIP is a free computational phylogenetics package of programs for inferring evolutionary trees . The name is an acronym for PHYLogeny Inference Package. It consists of 35 portable programs, i.e...

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