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How to obtain alignment figure?

I need to create an alignment figure like this (http://journals.plos.org/plosone/article/figure/image?size=large&id=10.1371/journal.pone.0165965.g002) for my infile.fasta. I tried clustalw -INFILE=infile.fasta -ALIGN, but it's nowhere close to what they have in the paper. How can I create this alignment figure?

clustalw alignment
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updated by Joe Joe • written by MAPK MAPK

After you obtain the .aln file from ClustalW, import it into Jalview. I was able to get figure like that (albeit in colour).

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written by Amitm Amitm

1 answer

You can also use ESPript to generate similar (if not more advanced) alignment figures.

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written by Joe Joe

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