How to obtain alignment figure?
1
0
Entering edit mode
2.7 years ago
MAPK ★ 1.7k

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 • 542 views
1
Entering edit mode

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

2
Entering edit mode
2.7 years ago
Joe 19k

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