MAFFT is freely available for academic use, without any warranty.
- Katoh K, Kuma K, Toh H, Miyata T (2005). MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res, 33:511-518. (note: describes [ancestral versions of] the G-INS-i, L-INS-i and E-INS-i strategies.)
- Katoh K, Misawa K, Kuma K, Miyata T (2002). MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res, 30:3059-3066. (note: describes the FFT-NS-1, FFT-NS-2 and FFT-NS-i strategies.)
- Official website
- MAFFT Online Server
- ClustalW / MAFFT / PRRN at GenomeNet
- ClustalW / TCoffee / MAFFT in MyHits, SIB