equicktandem scans a sequence for potential tandem repeats up to a specified size. The results can be used to run etandem on the candidate repeat lengths to identify genuine tandem repeats.

Here is a sample session with equicktandem. The input sequence is the human herpesvirus tandem repeat:

% equicktandem Input sequence: embl:hhtetra Output file [hhtetra.qtan]: Maximum repeat size [600]: Threshold score [20]:

Mandatory qualifiers:

[-sequence] (sequence)

Sequence USA.

-maxrepeat (integer)

Maximum repeat size.

-threshold (integer)

Threshold score.

[-outfile] (report)

Output report filename.

Advanced qualifiers:

-origfile (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

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