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MAFFT
Developer(s)
Kazutaka Katoh
Stable release
7.475
/ 23 November 2020; 3 years ago (2020-11-23)
Written in
C
Operating system
UNIX, Linux, Mac, MS-Windows
Type
Bioinformatics tool
Licence
BSD[1]
Website
mafft.cbrc.jp/alignment/software/
In bioinformatics, MAFFT (for multiple alignment using fast Fourier transform) is a program used to create multiple sequence alignments of amino acid or nucleotide sequences. Published in 2002, the first version of MAFFT used an algorithm based on progressive alignment, in which the sequences were clustered with the help of the fast Fourier transform.[2] Subsequent versions of MAFFT have added other algorithms and modes of operation,[3] including options for faster alignment of large numbers of sequences,[4] higher accuracy alignments,[5] alignment of non-coding RNA sequences,[6] and the addition of new sequences to existing alignments.[7]
^The base MAFFT software is distributed under the BSD license, while versions for Microsoft Windows are licensed under the GNU General Public License. Some distributions of MAFFT contain software licensed under other licenses https://mafft.cbrc.jp/alignment/software/
^Katoh, Kazutaka; Misawa, Kazuharu; Kuma, Kei-ichi; Miyata, Takashi (2002). "MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform". Nucleic Acids Research. 30 (14): 3059–66. doi:10.1093/nar/gkf436. PMC 135756. PMID 12136088.
^"MAFFT ver.7 - a multiple sequence alignment program". mafft.cbrc.jp. Retrieved 28 April 2021.
^Katoh, K; Toh, H (2006). "PartTree: An algorithm to build an approximate tree from a large number of unaligned sequences". Bioinformatics. 23 (3): 372–4. doi:10.1093/bioinformatics/btl592. PMID 17118958.
^Katoh, K; Kuma, K; Miyata, T; Toh, H (2005). "Improvement in the accuracy of multiple sequence alignment program MAFFT". Genome Informatics. International Conference on Genome Informatics. 16 (1): 22–33. PMID 16362903.
^Katoh, Kazutaka; Toh, Hiroyuki (2008). "Improved accuracy of multiple ncRNA alignment by incorporating structural information into a MAFFT-based framework". BMC Bioinformatics. 9: 212. doi:10.1186/1471-2105-9-212. PMC 2387179. PMID 18439255.
^Katoh, Kazutaka; Frith, Martin C (2012). "Adding unaligned sequences into an existing alignment using MAFFT and LAST". Bioinformatics. 28 (23): 3144–6. doi:10.1093/bioinformatics/bts578. PMC 3516148. PMID 23023983.
In bioinformatics, MAFFT (for multiple alignment using fast Fourier transform) is a program used to create multiple sequence alignments of amino acid...
their popularity: ClustalW MUSCLE MAFFT MANGO And many more Multiple alignment using fast Fourier transform (MAFFT) is a program with an algorithm based...
high accuracy scores, MAFFT was the fastest, closely followed by Clustal Omega. Both were faster than T-Coffee, however MAFFT and Clustal Omega required...
NIAS DNA Bank. Archived from the original on 2011-08-11. "anysymbol". MAFFT - a multiple sequence alignment program. "Alignment Fileformats". 22 May...
Protein engineering is the process of developing useful or valuable proteins through the design and production of unnatural polypeptides, often by altering...
protein alignments. An alternative tool for progressive DNA alignments is MAFFT (Multiple Alignment using Fast Fourier Transform). Another common progressive...
many proteins or RNAs or long genomic DNA sequences. Along with MUSCLE and MAFFT, FSA is one of the few sequence alignment programs which can align datasets...
Official website AliView 2021 No MUSCLE integrated; other programs such as MAFFT can be defined External programs such as FastTree can be called from within...
alignment - BLAST, Dot plots Multiple alignment - ClustalW, PROBCONS, MUSCLE, MAFFT, and T-Coffee. A common use for pairwise sequence alignment is to take a...
profiles, which is more specific for the sequences to be aligned. ClustalW and MAFFT adopted this kind of gap penalty determination for their multiple sequence...
sequence Multiple sequence alignment: Clustal W and O, MUSCLE, Kalign, MAFFT, T-Coffee Create and use shared storage, e.g., lab database Search through...
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Felsenstein's book "Inferring Phylogenies"</name> <description>MrBayes based on MAFFT alignment</description> <clade> <clade branch_length="0.06"> <confidence...
significant advantage in accuracy over similar tools, including Clustal and MAFFT. The following describes the basic outline of the ProbCons algorithm. For...
discovered the presence of NUMTs in the fish genome in 2005 by using BLAST, MAFFT, genome mapping, and phylogenic analysis. The western honey bee and Hydra...
bioinformatics software tools such as Clustal Omega, MUSCLE, T-Coffee, and MAFFT. These tools provide interactive platforms for aligning sequences, highlighting...
For each family multiple sequence are aligned using a default setting of MAFFT, any column which is aligned less than 75% of the sequence is removed. This...
location of the sample. Multiple sequence alignment algorithms (e.g., MUSCLE, MAFFT, and CLUSAL W) will align the data set with all selected sequences. After...
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