Question: Viral Genome Alignment in MAFFT
0
gravatar for mauricio.morales
4 weeks ago by
mauricio.morales0 wrote:

Hi! I want to do an alignment for 743 viral genomes (27-30 kb approximately) in MAFFT. All genomes are complete and downloaded from NCBI virus. I want to do the best alignment and have already performed 5 test alignments, but I need your suggestions and experience to get the best possible result.

What parameter do you suggest to use for a case like this? Thank you!

sequence alignment genome • 90 views
ADD COMMENTlink modified 4 weeks ago • written 4 weeks ago by mauricio.morales0
1

If these virii are closely related then you should be fine using default settings. Depending on alignment you get some manual editing may be warranted afterwards.

ADD REPLYlink modified 4 weeks ago • written 4 weeks ago by genomax91k
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