Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
aligning whole chloroplast genomes jullee Bioinformatics 1 02-13-2015 07:55 AM
aligning pre-assembled transcriptomes to genomes skeffington Bioinformatics 2 02-11-2015 04:28 AM
aligning multiple fastq for the same sample epi Bioinformatics 16 05-11-2012 01:10 PM
Aligning against two yeast genomes? sylvesterholt RNA Sequencing 0 02-02-2011 07:05 AM

Thread Tools
Old 03-13-2015, 01:30 AM   #1
Location: Italy

Join Date: Jul 2010
Posts: 22
Default Aligning multiple small viral genomes

Hi all,
For a sequencing project I need to align multiple (>100) small (<6kb) viral genomes. Which is the best algorithm to use? I tried Mauve and it seems to work fine, but the results are indeed confusing, with so many sequences.
What would you suggest?

MikeT is offline   Reply With Quote
Old 03-13-2015, 03:58 AM   #2
Senior Member
Location: East Coast USA

Join Date: Feb 2008
Posts: 7,131

Are these genomes homologous/mostly identical? You should perhaps try more conventional MSA programs like clustal, t-coffee or muscle in that case.
GenoMax is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 12:45 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO