epestfind - Finds PEST motifs as potential proteolytic cleavage sites

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EMBOSS 6.4.0                                       05/11/2012                                      EPESTFIND(1e)

epestfind is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”).
       It is part of the "Protein:Motifs" command group(s).

       epestfind - Finds PEST motifs as potential proteolytic cleavage sites

Inputsection-sequencesequence
           Protein sequence USA to be analysed.

       -mwdatadatafile
           Default value: Emolwt.dat

   Requiredsection-windowinteger
           Minimal distance between positively charged amino acids. Default value: 10

       -orderselection
           Name of the output file which holds the results of the analysis. Results may be sorted by length,
           position and score. Default value: score

   Additionalsection-thresholdfloat
           Threshold value to discriminate weak from potential PEST motifs. Valid PEST motifs are discriminated
           into 'poor' and 'potential' motifs depending on this threshold score. By default, the default value
           is set to +5.0 based on experimental data. Alterations are not recommended since significance is a
           matter of biology, not mathematics. Default value: +5.0

   Advancedsection-monoboolean
           Default value: N

       -potentialboolean
           Decide whether potential PEST motifs should be printed. Default value: Y

       -poorboolean
           Decide whether poor PEST motifs should be printed. Default value: Y

       -invalidboolean
           Decide whether invalid PEST motifs should be printed. Default value: N

       -mapboolean
           Decide whether PEST motifs should be mapped to sequence. Default value: Y

   Outputsection-outfileoutfile
           Name of file to which results will be written.

       -graphxygraph

       epestfind is fully documented via the tfm(1) system.

epestfind-sequencesequence [-mwdatadatafile] -windowinteger-orderselection [-thresholdfloat]
                 -monoboolean-potentialboolean-poorboolean-invalidboolean-mapboolean-outfileoutfile-graphxygraphepestfind-help