MAFFT is a multi-sequence alignment program for Unix/Linux systems. It offers various alignment strategies to meet different scale and accuracy requirements: L-INS-i is suitable for high-precision alignment of ≤ 200 sequences, and FFT-NS-2 is suitable for fast alignment of ≤ 30,000 sequences. MAFFT can automatically identify the type of amino acid or nucleotide sequences in the input and provides the --auto parameter to allow the program to automatically select the optimal alignment strategy. MAFFT is one of the most accurate and fastest tools in the field of multi-sequence alignment at present.