Can IGV visualize clustal format alignment?

Question

[shadowstep]

I produced a multiple alignment using

mafft --clustalout seq.fasta > align.fa

Is there any tool to help visualize this alignment file? IGV user guide said that a BAM file is required, how could I produce BAM format alignment file? Thank you!

[guillaume.rbt]

IGV is not meant to be used to visualize multiple alignment files, maybe you could use the web interface of MAFFT to do your alignement, it will produce a visual output.

Answer 1

[GenoMax]

Why do you need IGV to visualize a MSA? You can use JalView, MEGA, Clustal etc for this purpose.

Answer 2

[Buffo]

You can visulize it with Jalview