Need help for Software that can do codon usage analysis

Tom Hall tahall2 at unity.ncsu.edu
Tue Nov 9 11:45:58 EST 1999


If you're looking for something that will simply tabulate the frequencies of codon usage in individual ORF-encoding DNA sequences (and compare the usage frequencies
to another organism such as E. coli), a sequence/alignment editor called BioEdit will do that:

http://www.mbio.ncsu.edu/RNaseP/info/programs/BIOEDIT/bioedit.html

It does not do any sophisticated ORF identification, however, and is not useful for analyzing large stretches of raw DNA that may have multiple ORFs.

Tom Hall

Zhong Wang wrote:

> Hi,
>
> Anybody knows about software that can do codon usage analysis? I remember MacVector can do it, this way it is much easier to pick up a frameshift mutation in your
> DNA sequence. But I am working on IBM PC, there should be a software like that.
> Thanks.






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