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Multiple alignment program for amino acid or nucleotide sequences


MAFFT is a multiple sequence alignment program which offers three accuracy-oriented methods:
 * L-INS-i (probably most accurate; recommended for <200 sequences;
   iterative refinement method incorporating local pairwise alignment
 * G-INS-i (suitable for sequences of similar lengths; recommended for
   <200 sequences; iterative refinement method incorporating global
   pairwise alignment information),
 * E-INS-i (suitable for sequences containing large unalignable regions;
   recommended for <200 sequences),
and five speed-oriented methods:
 * FFT-NS-i (iterative refinement method; two cycles only),
 * FFT-NS-i (iterative refinement method; max. 1000 iterations),
 * FFT-NS-2 (fast; progressive method),
 * FFT-NS-1 (very fast; recommended for >2000 sequences; progressive
   method with a rough guide tree),
 * NW-NS-PartTree-1 (recommended for ∼50,000 sequences; progressive
   method with the PartTree algorithm).

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1150 other people were interested in this package here. The newest known version of this software is 7.310-1 (Information last updated about 14 hours ago.)