einverted looks for inverted repeats (stem loops) in a nucleotide sequence.

Here is a sample session with einverted:

% einverted Input sequence: embl:hsts1 Output file [hsts1.inv]: Gap penalty [12]: Minimum score threshold [50]: Match score [3]: Mismatch score [-4]:

Mandatory qualifiers:

[-sequence] (sequence)

Sequence USA.

-gap (integer)

Gap penalty.

-threshold (integer)

Minimum score threshold.

-match (integer)

Match score.

-mismatch (integer)

Mismatch score.

[-outfile] (outfile)

Output filename.

Sequence Analysis in a Nutshell
Sequence Analysis in a Nutshell: A Guide to Common Tools and Databases
ISBN: 059600494X
EAN: 2147483647
Year: 2005
Pages: 312

Similar book on Amazon

flylib.com © 2008-2017.
If you may any questions please contact us: flylib@qtcs.net