Question

sequence alignment using a core alignment

1

Entering edit mode

9.9 years ago

ronyc ▴ 10

Hi,

I have an alignment between 4 proteins and I want to add each protein's sequence homolgs to it. Is there a tool where I can label my original alignment as a "core alignment" and not change it, and have the homolgs align according to this alignment?

Thanks!

alignment sequence • 2.4k views

ADD COMMENT • link updated 2.5 years ago by Ram 43k • written 9.9 years ago by ronyc ▴ 10

Ram · Accepted Answer · 2014-06-23

3

Entering edit mode

9.8 years ago

DG 7.3k

MAFFT lets you do this with the --add_sequence option: http://mafft.cbrc.jp/alignment/software/addsequences.html

Quite good alignment software, and I've used this option many times to add new sequences to existing alignments.

ADD COMMENT • link updated 2.5 years ago by Ram 43k • written 9.8 years ago by DG 7.3k

0

Entering edit mode

Thanks so much! This is exactly what I was searching for, can't wait to try it out!

ADD REPLY • link 9.8 years ago by ronyc ▴ 10

0

Entering edit mode

You're welcome, glad to help. BTW it is good practice to upvote and accept an answer if it satisfies your question so that other people can more easily find the solution if they search for a similar problem.

ADD REPLY • link updated 2.5 years ago by Ram 43k • written 9.8 years ago by DG 7.3k