------------------------------------------------------------ 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 70 sequences from file LACTALBUMIN_LYSOZYME PATTERN CONSERVATION: CM: min Nr of Seqs to Match 70 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 LACTALBUMIN_LYSOZYME.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: LCAA_HORSE 123 LCAB_HORSE 123 LCA_BOVIN 142 LCA_CAMDR 123 LCA_CAPHI 142 LCA_CAVPO 142 LCA_EQUAS 123 LCA_FELCA 24 LCA_HUMAN 142 LCA_MACEU 140 LCA_MACGI 42 LCA_MACRG 121 LCA_MOUSE 143 LCA_ORNAN 126 LCA_PAPCY 123 LCA_PIG 141 LCA_RABIT 122 LCA_RAT 159 LCA_SHEEP 142 LYC1_ANAPL 147 LYC1_CAPHI 129 LYC1_PIG 128 LYC1_RAT 148 LYC1_TACAC 125 LYC2_CAPHI 129 LYC2_ONCMY 144 LYC2_PIG 128 LYC2_RAT 148 LYC3_ANAPL 129 LYC3_PIG 130 LYCK_SHEEP 130 LYCM_MOUSE 148 LYCN_BOVIN 141 LYCP_MOUSE 148 LYC_ASTRU 25 LYC_AXIAX 129 LYC_BOVIN 147 LYC_CAMDR 130 LYC_CERAE 148 LYC_CHICK 147 LYC_CHRAM 129 LYC_COLLI 127 LYC_COLVI 129 LYC_COTJA 147 LYC_EQUAS 129 LYC_FELCA 20 LYC_HORSE 129 LYC_HUMAN 148 LYC_HYACE 139 LYC_LOPCA 129 LYC_LOPLE 129 LYC_MACMU 148 LYC_MELGA 147 LYC_NUMME 129 LYC_ORTVE 129 LYC_PAPAN 130 LYC_PAVCR 129 LYC_PHACO 147 LYC_PREEN 148 LYC_PSEPE 49 LYC_RABIT 130 LYC_SHEEP 129 LYC_SYRRE 129 LYSA_DROME 140 LYSB_DROME 140 LYSD_DROME 140 LYSE_DROME 140 LYSP_DROME 141 LYSS_DROME 139 LYSX_DROME 81 Pratt run started at Thu Feb 6 20:10:00 1997 No patterns found