CBU - Computational Biology Unit
 
The Pratt program is able to discover patterns conserved in sets of unaligned protein sequences. The output is in the form of Prosite patterns.

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O-options

The O options allow you to control the output from Pratt:

Option OF:
Allows you to specify the name of the file to which Pratt will write its outputOption

OP:
when switched on, patterns will be output in PROSITE style (for instance C-x(2,4)-[DE]). When switched off, patterns are output in a simpler consensus pattern style (for instance Cxx--[DE] where x matches exactly one arbitrary sequence symbol and - matches zero or one arbitrary sequence symbol).

Option ON:
set the max. nr of patterns to be found by Pratt.

Option OA:
set the max. nr of patterns for which Pratt is to produce an alignment of the sequence segments matching it.

This page is maintained by webmaster@bccs.uib.no. Last updated: Tuesday 12 February, 2008
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