This service is experimental, 2019/Aug.
Upper limit of data size and other settings will be changed after trying actual cases.
Fixed bug in loading FASTQ file, 2019/Dec/4.
Fixed bug in handling data with many ns, 2019/Dec/5.
Multiple alignment of raw reads by LAST and MAFFT
Paste sequences (<? nt. × <? sequences; original strands from the sequencer) in FASTA or FASTQ format.
More examples for specific cases are in the Parameters panel below
If the input data has both forward and reverse strands, they'll be automatically flipped as necessary.
Don't flip any sequences in the input, in order to appropriately consider different error patterns between forward and reverse strands.
Or, upload the input sequences as a plain text file (example)
or a .zip file containing a single plain text file (example):
UPPERCASE / lowercase
(optional; used as output file name and subject of emails):
Notify when finished
(optional; recommended when submitting large data):
For partially overlapping data
The output does not always include all input sequences.
For fully overlapping data
MAFFT with parameters estimated by LAST-TRAIN:
Use pairwisely aligned sites by LAST
(for partially overlapping data):
Plot LAST hits
- Frith, Mitsuhashi, Katoh 2021
(Methods Mol Biol 2231:135-145)
- Hamada, Ono, Asai, Frith 2017
- Katoh, Rozewicki, Yamada 2019
(Briefings in Bioinformatics 20:1160-1166)
MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization
- Kuraku, Zmasek, Nishimura, Katoh 2013
(Nucleic Acids Research 41:W22-W28)
aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity