------------------------------------------------------------
                Pratt version 2.1, Sept. 1996
                 Written by Inge Jonassen, 
                   University of Bergen
                           Norway
                   email: inge@ii.uib.no
                 For more information, see 
            http://www.ii.uib.no/~inge/Pratt.html
------------------------------------------------------------
                        Please quote:
             I.Jonassen, J.F.Collins, D.G.Higgins.
             Protein Science 1995;4(8):1587-1595.
------------------------------------------------------------



                Pratt version 2.1 

        Analysing 17 sequences from file SCORP_SHORT_TOXIN

PATTERN CONSERVATION:
   CM: min Nr of Seqs to Match                 17
   C%: min Percentage Seqs to Match         100.0

PATTERN RESTRICTIONS :
   PP: pos in seq [off,complete,start]        off
   PL: max Pattern Length                      50
   PN: max Nr of Pattern Symbols               50
   PX: max Nr of consecutive x's                5
   FN: max Nr of flexible spacers               2
   FL: max Flexibility                          2
   FP: max Flex.Product                        10
   BI: Input Pattern Symbol File              off
   BN: Nr of Pattern Symbols Initial Search    20

PATTERN SCORING:
   S: Scoring [info,mdl,tree,dist,ppv]       info

SEARCH PARAMETERS:
   G: Pattern Graph from [seq,al,query]       seq
   E: Search Greediness                         3
   R: Pattern Refinement                       on
   RG: Generalise ambiguous symbols           off

OUTPUT:
   OF: Output Filename       SCORP_SHORT_TOXIN.pratt2
   OP: PROSITE Pattern Format                  on
   ON: max number patterns                     20
   OA: max number Alignments                   20
   M: Print Patterns in sequences             off




Sequence lengths:
    SCA1_LEIQH     38
    SCA2_LEIQH     38
    SCA3_LEIQH     38
    SCK1_ANDMA     38
    SCK1_CENLL     38
    SCK2_ANDMA     59
    SCK2_CENLL     36
    SCK2_LEIQH     37
    SCK2_TITSE     30
    SCK3_LEIQU     14
    SCK5_ANDMA     31
    SCKA_TITSE     37
    SCKC_LEIQH     37
    SCKI_MESTA     37
    SCKL_LEIQH     31
    SCKM_CENMA     39
    SCKN_CENNO     39

Pratt run started at Thu Feb  6 21:11:43 1997



Best Patterns before refinement:
         fitness     hits(seqs)    Pattern
    1:    7.8401     24(  17)   C-x(1,2)-S


Best Patterns (after refinement phase):
         fitness     hits(seqs)    Pattern
A   1:    7.8401     24(  17)   C-x(1,2)-S


Best patterns with alignements:
         fitness     hits(seqs)    Pattern
A   1:    7.8401     24(  17)   C-x(1,2)-S
Occurences: 24(17)
    SCA1_LEIQH :     8-    11: pinvk CtgS pqclk
    SCA2_LEIQH :     8-    11: pinvs CtgS pqcik
    SCA3_LEIQH :     8-    11: pinvp CtgS pqcik
    SCK1_ANDMA :     8-    11: einvk CsgS pqclk
    SCK1_CENLL :     7-     9: tinvk Ct-S pqqcl
    SCK2_ANDMA :    29-    32: ripvs CkhS gqclk
    SCK2_CENLL :     7-     9: vidvk Ct-S pkqcl
    SCK2_LEIQH :     7-    10: ftqes CtaS nqcws
    SCK2_LEIQH :    13-    15: tasnq Cw-S ickrl
    SCK2_LEIQH :    35-    37: nkkcr Cy-S      
    SCK2_TITSE :     7-    10: finvk CrgS peclp
    SCK3_LEIQU :     7-    10: lidvr CydS sqce 
    SCK5_ANDMA :     8-    11: cnlrr CqlS crslg
    SCK5_ANDMA :    12-    14: rcqls Cr-S lgllg
    SCKA_TITSE :     7-    10: finak CrgS peclp
    SCKC_LEIQH :     7-    10: ftnvs CttS kecws
    SCKC_LEIQH :    13-    15: ttske Cw-S vcqrl
    SCKC_LEIQH :    35-    37: nkkcr Cy-S      
    SCKI_MESTA :     7-    10: ftdvd CsvS kecws
    SCKI_MESTA :    13-    15: svske Cw-S vckdl
    SCKL_LEIQH :     8-    11: cnlrm CqlS crslg
    SCKL_LEIQH :    12-    14: mcqls Cr-S lgllg
    SCKM_CENMA :     7-     9: iinvk Ct-S pkqcl
    SCKN_CENNO :     7-     9: iinvk Ct-S pkqcs

Number of patterns evaluated by Pratt:1
Total running time:    0 seconds