AMAP is a multiple sequence alignment program based on sequence annealing.[1] This approach consists of building up the multiple alignment one match at a time, thereby circumventing many of the problems of progressive alignment. The AMAP parameters can be used to tune the sensitivity-specificity tradeoff.

AMAP
Developer(s)Ariel Schwartz (UC Berkeley), Lior Pachter (UC Berkeley)
Stable release
2.0
Operating systemUNIX, Linux, Mac
TypeBioinformatics tool
LicenceOpen source
WebsiteAMAP download

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

Input/Output

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This program accepts sequences in FASTA format.

The output format includes: FASTA format, Clustal.

References

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  1. ^ S. Schwartz, A.; Pachter, L. (19 January 2007). "Multiple alignment by sequence annealing". Bioinformatics. 23 (2): e24–e29. doi:10.1093/bioinformatics/btl311.
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