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{{Infobox Software|name=FSA|developer=Robert Bradley ([[UC Berkeley]]), Colin Dewey ([[UW Madison]]), [[Lior Pachter]] ([[UC Berkeley]])|latest_release_version=1.5.2|operating_system=[[UNIX]], [[Linux]], [[Apple Macintosh|Mac]]|genre=Bioinformatics tool|licence=Open source}}
'''FSA''' is a [[multiple sequence alignment]] program for aligning many proteins or RNAs or long genomic DNA sequences. Along with [[MUSCLE (alignment software)|MUSCLE]] and [[MAFFT]], FSA is one of the few sequence alignment programs which can align datasets of hundreds or thousands of sequences. FSA uses a different optimization criterion which allows it to more reliably identify non-homologous sequences than these other programs, although this increased accuracy comes at the cost of decreased speed.
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== References ==
{{cite journal|author=Bradley RK, Roberts A, Smoot M, Juvekar S, Do J, Dewey C, Holmes I, [[Lior Pachter|Pachter L]] |date=2009|title=Fast Statistical Alignment|journal=PLoS Computational Biology. 5:e1000392|url=http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1000392;jsessionid=A1330A60E3DF04619596611E153F8332}}
== External links ==
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