Login

Join for Free!
118267 members


Alignment report

Everything on bioinformatics, the science of information technology as applied to biological research.

Moderator: BioTeam

Alignment report

Postby DryIceFun » Tue Oct 12, 2010 9:02 pm

Hey everyone, I have a question regarding an alignment report.
Does someone know a program/web-based tool that aligns amino acids and/or nucleotides AND creates a report that tells me something like "amino acid on position 123 F is converted to L"
Until now I do it manually...quite time consuming...

Thanks for all hints!

P.S.: Freeware would be best...but Shareware is OK also...
DryIceFun
Garter
Garter
 
Posts: 1
Joined: Tue Oct 12, 2010 8:15 pm

Postby JackBean » Wed Oct 13, 2010 9:27 am

hi, no need to post twice ;)

anyway, I don't think there is anything like that...
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
User avatar
JackBean
Inland Taipan
Inland Taipan
 
Posts: 5678
Joined: Mon Sep 14, 2009 7:12 pm

Postby canalon » Wed Oct 13, 2010 1:58 pm

I just saw Geneious in action (OK the free version is limited but it will do quite a lot of things, including alignment).It does notgenerate a report, but the color coded alignments generated make the detection of mismatches quite fast.
Patrick

Science has proof without any certainty. Creationists have certainty without
any proof. (Ashley Montague)
User avatar
canalon
Inland Taipan
Inland Taipan
 
Posts: 3909
Joined: Thu Feb 03, 2005 2:46 pm
Location: Canada


Postby JackBean » Wed Oct 13, 2010 3:47 pm

well, like every alinment tool can do that
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
User avatar
JackBean
Inland Taipan
Inland Taipan
 
Posts: 5678
Joined: Mon Sep 14, 2009 7:12 pm

Postby canalon » Wed Oct 13, 2010 8:17 pm

I guess so, just saying that it does not take that long to spot the inconsistent color (or the weird color in the consensus line).
But I do not know anything that would align then generates a report.
Patrick

Science has proof without any certainty. Creationists have certainty without
any proof. (Ashley Montague)
User avatar
canalon
Inland Taipan
Inland Taipan
 
Posts: 3909
Joined: Thu Feb 03, 2005 2:46 pm
Location: Canada

Postby JackBean » Thu Oct 14, 2010 6:03 am

agree, I was thinking about writing that as well, but then I thougth, that's not what he asked for, so not to writte...
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
User avatar
JackBean
Inland Taipan
Inland Taipan
 
Posts: 5678
Joined: Mon Sep 14, 2009 7:12 pm


Return to Bioinformatics

Who is online

Users browsing this forum: No registered users and 0 guests