Multiple sequence alignment by MAFFT ver.5.743

I / O

Input:
Paste protein or DNA sequences in fasta format. Example

 
or upload a file:
 
I have protein structural alignment(s). New!  Help

(OPTIONAL) Structural alignment 1 (Used as constraints as far as consistent with other structural alignments): Help
Paste a protein alignment in fasta format. Example

 
(OPTIONAL) Structural alignment 2:
Paste a protein alignment in fasta format.

 
(OPTIONAL) Structural alignment 3:
Paste a protein alignment in fasta format.

 
(OPTIONAL) Structural alignment 4:
Paste a protein alignment in fasta format.

Output:
Email to
Web
 
Output order:
Same as input
Aligned

Advanced settings

Strategy:
FFT-NS-1 (Very fast; recommended for >2000 sequences; progressive method)
FFT-NS-2 (Fast; progressive method)
(Medium; iterative refinement method, two cycles only)
FFT-NS-i (Slow; iterative refinement method)
L-INS-i (Very slow; recommended for <200 sequences) Help
E-INS-i (Very slow; recommended for <200 sequences) Help

Parameters:
Scoring matrix (for amino acid sequences): BLOSUM30 BLOSUM45 BLOSUM62 BLOSUM80 JTT100 JTT200
Gap opening penalty: (1.0-3.0)
Offset value: (0.0-1.0; functions like gap extension penalty)