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Fast statistical alignment
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<p>Fast statistical alignment or FSA is a <a href="/facts/Multiple_sequence_alignment/en7c7SQs">multiple sequence alignment</a> program for aligning many proteins, <a href="/facts/RNA/HxPeNfNj">RNAs</a>, or long genomic <a href="/facts/Nucleic_acid_sequence/qAf4kTee">DNA sequences</a>. Along with <a href="/facts/MUSCLE_(alignment_software)/Qw9GWV6m">MUSCLE</a> and <a href="/facts/MAFFT/stcAIeTJ">MAFFT</a>, 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. </p><p>FSA is currently being used for multiple projects, including sequencing new worm genomes and analyzing <i>in vivo</i> transcription factor binding in flies. </p>