MAVID

MAVID
Developer(s)	Nicolas Bray (UC Berkeley), Lior Pachter (UC Berkeley)
Stable release	2.0.4
Operating system	UNIX, Linux, Mac
Type	Bioinformatics tool
Licence	Open source
Website	MAVID download

MAVID is a multiple sequence alignment program suitable for the alignment of large numbers of DNA sequences.^[1]^[2] 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.

The output format includes: FASTA format, Clustal, PHYLIP.

References

^ Dewey, Colin N. (2007), "Aligning Multiple Whole Genomes with Mercator and MAVID", in Bergman, Nicholas H. (ed.), Comparative Genomics, Methods in Molecular Biology, vol. 395, Humana Press, pp. 221–235, doi:10.1007/978-1-59745-514-5_14, ISBN 978-1-58829-693-1, PMID 17993677
^ Bray, Nicolas; Pachter, Lior (2003-07-01). "MAVID multiple alignment server". Nucleic Acids Research. 31 (13): 3525–3526. doi:10.1093/nar/gkg623. ISSN 0305-1048. PMC 169029. PMID 12824358.

Bray, N.; Pachter, L. (2004), "MAVID: Constrained ancestral alignment of multiple sequences", Genome Research, 14 (4): 693–699, arXiv:q-bio/0311018, doi:10.1101/gr.1960404, PMC 383315, PMID 15060012.

External links

MAVID web server

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[1] Dewey, Colin N. (2007), "Aligning Multiple Whole Genomes with Mercator and MAVID", in Bergman, Nicholas H. (ed.), Comparative Genomics, Methods in Molecular Biology, vol. 395, Humana Press, pp. 221–235, doi:10.1007/978-1-59745-514-5_14, ISBN 978-1-58829-693-1, PMID 17993677

[2] Bray, Nicolas; Pachter, Lior (2003-07-01). "MAVID multiple alignment server". Nucleic Acids Research. 31 (13): 3525–3526. doi:10.1093/nar/gkg623. ISSN 0305-1048. PMC 169029. PMID 12824358.

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