------------------------------------------------------------ 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 5 sequences from file DNA_LIGASE_N1 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 5 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 DNA_LIGASE_N1.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: DNLJ_ECOLI 671 DNLJ_HAEIN 679 DNLJ_THETH 676 DNLJ_ZYMMO 731 YICF_ECOLI 560 Pratt run started at Thu Feb 6 19:19:30 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 61.5508 5( 5) K-x-D-G-x(4,5)-L-x(0,1)-Y-x(2)-G-x-L-x(5)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 2: 53.2107 5( 5) G-x(4,5)-L-x(0,1)-Y-x(2)-G-x-L-x(5)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 3: 49.0406 5( 5) Y-x(2)-G-x-L-x(2,3)-A-x(1,2)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 4: 45.3706 5( 5) L-x(3,4)-G-x-L-x(5)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 5: 44.8706 5( 5) G-x-L-x(2,3)-A-x(1,2)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 6: 44.8706 5( 5) L-x(3,4)-G-x(0,1)-L-x(5)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 7: 40.7005 5( 5) L-x(2,3)-A-x(1,2)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 8: 37.0305 7( 5) A-x(1,2)-R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 9: 33.3604 5( 5) R-G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 10: 32.3604 5( 5) Q-x(0,2)-V-G-x(2)-G-x(4)-V-x(2)-L-x-P-V 11: 29.1904 5( 5) V-G-x(2)-G-x(4)-V-x(2)-L-x-P-V 12: 29.1904 5( 5) G-x-G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 13: 28.6904 5( 5) V-G-x(1,2)-G-x(4)-V-x(2)-L-x-P-V 14: 28.1904 5( 5) G-D-x(2,3)-V-x(2,3)-A-G-x(2)-I-P 15: 28.1904 5( 5) V-G-x(2)-G-x(3,4)-V-x(2,3)-L-x-P-V 16: 28.1904 5( 5) N-x-R-x(0,1)-A-x(1,2)-A-G-x(5)-D-x(3)-T 17: 27.6904 5( 5) R-x(3)-A-G-x(0,1)-L-x(0,2)-R-Q-x-D 18: 27.6904 5( 5) N-A-x(0,1)-A-x(0,2)-A-G-x(5)-D-x(3)-T 19: 25.0203 5( 5) G-x(2)-G-E-x(2)-T-x(5)-I-x(3)-P 20: 24.0203 5( 5) D-x(2,3)-V-x(2,3)-A-G-x(2)-I-P Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 118.0355 5( 5) Q-x(0,2)-V-G-[KR]-[ST]-G-x-[ILV]-[ST]-[PV]-V-[AG]-x-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV] B 2: 111.6667 5( 5) V-G-x(2)-G-x-[ILV]-[ST]-[PV]-V-[AG]-x-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV]-[IV] C 3: 111.1667 5( 5) V-G-x(1,2)-G-x-[ILV]-[ST]-[PV]-V-[AG]-x-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV]-[IV] D 4: 104.9022 5( 5) V-G-[KR]-[ST]-G-x(3,4)-V-x(2,3)-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV]-[IV] E 5: 96.6857 5( 5) K-[ILV]-D-G-x(4,5)-L-x(0,1)-Y-x(2)-G-x-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] F 6: 85.6838 5( 5) G-x(4,5)-L-x(0,1)-Y-x(2)-G-x-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] G 7: 77.8437 5( 5) L-x(3,4)-G-x-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] H 8: 77.3437 5( 5) L-x(3,4)-G-x(0,1)-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] I 9: 69.8908 5( 5) Y-x(2)-G-x-L-x(2,3)-A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] J 10: 65.7207 5( 5) G-x-L-x(2,3)-A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] K 11: 61.5507 5( 5) L-x(2,3)-A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] L 12: 57.8989 5( 5) R-[AN]-x-[AV]-A-G-x(0,1)-L-x(0,2)-R-Q-x-D-[PS]-[DNR]-x(2)-[ANS]-x(2)-[GPS]-[LV]-x(4)-[HWY]-[AGP]-x-G M 13: 57.8806 7( 5) A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] N 14: 54.2106 5( 5) R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] O 15: 50.3454 5( 5) N-[AP]-R-x(0,1)-A-x(1,2)-A-G-x-[LM]-x-[QR]-x-D-[DP]-[NRS]-x-T-x(2)-[RS]-x-[GL] P 16: 50.3069 5( 5) G-D-x(2,3)-V-x(2,3)-A-G-[DGQ]-[GV]-I-P-[EQR]-[IV]-x(2)-[NV]-[LV]-x(4)-[DEPT]-x-[DENPT] Q 17: 46.8666 5( 5) G-x-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] R 18: 46.6243 5( 5) N-A-x(0,1)-A-x(0,2)-A-G-x-[LM]-x-[QR]-x-D-[DP]-[NRS]-x-T-x(2)-[RS]-x-[GL] S 19: 46.1369 5( 5) D-x(2,3)-V-x(2,3)-A-G-[DGQ]-[GV]-I-P-[EQR]-[IV]-x(2)-[NV]-[LV]-x(4)-[DEPT]-x-[DENPT] T 20: 42.6965 5( 5) G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Best patterns with alignements: fitness hits(seqs) Pattern A 1: 118.0355 5( 5) Q-x(0,2)-V-G-[KR]-[ST]-G-x-[ILV]-[ST]-[PV]-V-[AG]-x-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV] Occurences: 5(5) DNLJ_ECOLI : 330- 376: rdvef Q--VGRTGaITPVArLEPVhVAGvlVSNATLhNaDeiERlGLrIGDkVV irrag DNLJ_HAEIN : 340- 386: ndvef Q--VGRTGaITPVAkLEPVfVAGvtVSNATLhNgDeiERlNIaIGDtVV irrag DNLJ_THETH : 334- 380: ldvvf Q--VGRTGrVTPVGiLEPVfLEGseVSRVTLhNeSyiEElDIrIGDwVL vhkag DNLJ_ZYMMO : 358- 404: ldiei Q--VGRTGvLTPVAkLEPVtVGGvvVSSATLhNsDeiERlGVrPGDrVL vqrag YICF_ECOLI : 318- 366: evkai QfaVGKSGkISVVAsLAPVmLDDkkVQRVNIgSvRrwQEwDIaPGDqIL vslag B 2: 111.6667 5( 5) V-G-x(2)-G-x-[ILV]-[ST]-[PV]-V-[AG]-x-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV]-[IV] Occurences: 5(5) DNLJ_ECOLI : 331- 377: dvefq VGrtGaITPVArLEPVhVAGvlVSNATLhNaDeiERlGLrIGDkVVI rragd DNLJ_HAEIN : 341- 387: dvefq VGrtGaITPVAkLEPVfVAGvtVSNATLhNgDeiERlNIaIGDtVVI rragd DNLJ_THETH : 335- 381: dvvfq VGrtGrVTPVGiLEPVfLEGseVSRVTLhNeSyiEElDIrIGDwVLV hkagg DNLJ_ZYMMO : 359- 405: dieiq VGrtGvLTPVAkLEPVtVGGvvVSSATLhNsDeiERlGVrPGDrVLV qragd YICF_ECOLI : 321- 367: aiqfa VGksGkISVVAsLAPVmLDDkkVQRVNIgSvRrwQEwDIaPGDqILV slagq C 3: 111.1667 5( 5) V-G-x(1,2)-G-x-[ILV]-[ST]-[PV]-V-[AG]-x-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV]-[IV] Occurences: 5(5) DNLJ_ECOLI : 331- 377: dvefq VGrtGaITPVArLEPVhVAGvlVSNATLhNaDeiERlGLrIGDkVVI rragd DNLJ_HAEIN : 341- 387: dvefq VGrtGaITPVAkLEPVfVAGvtVSNATLhNgDeiERlNIaIGDtVVI rragd DNLJ_THETH : 335- 381: dvvfq VGrtGrVTPVGiLEPVfLEGseVSRVTLhNeSyiEElDIrIGDwVLV hkagg DNLJ_ZYMMO : 359- 405: dieiq VGrtGvLTPVAkLEPVtVGGvvVSSATLhNsDeiERlGVrPGDrVLV qragd YICF_ECOLI : 321- 367: aiqfa VGksGkISVVAsLAPVmLDDkkVQRVNIgSvRrwQEwDIaPGDqILV slagq D 4: 104.9022 5( 5) V-G-[KR]-[ST]-G-x(3,4)-V-x(2,3)-L-[AE]-P-V-x-[LV]-[ADEG]-[DG]-x(2)-V-[QS]-[NRS]-[AV]-[NT]-[IL]-x-[NS]-x-[DRS]-x(2)-[EQ]-[ER]-x-[DGN]-[ILV]-x-[IP]-G-D-x-[IV]-[LV]-[IV] Occurences: 5(5) DNLJ_ECOLI : 331- 377: dvefq VGRTGaitpVar-LEPVhVAGvlVSNATLhNaDeiERlGLrIGDkVVI rragd DNLJ_HAEIN : 341- 387: dvefq VGRTGaitpVak-LEPVfVAGvtVSNATLhNgDeiERlNIaIGDtVVI rragd DNLJ_THETH : 335- 381: dvvfq VGRTGrvtpVgi-LEPVfLEGseVSRVTLhNeSyiEElDIrIGDwVLV hkagg DNLJ_ZYMMO : 359- 405: dieiq VGRTGvltpVak-LEPVtVGGvvVSSATLhNsDeiERlGVrPGDrVLV qragd YICF_ECOLI : 321- 367: aiqfa VGKSGkisvVas-LAPVmLDDkkVQRVNIgSvRrwQEwDIaPGDqILV slagq YICF_ECOLI : 321- 367: aiqfa VGKSGkis-VvasLAPVmLDDkkVQRVNIgSvRrwQEwDIaPGDqILV slagq E 5: 96.6857 5( 5) K-[ILV]-D-G-x(4,5)-L-x(0,1)-Y-x(2)-G-x-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 115- 161: wccel KLDGlavsiL-YenGvLVsAATRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 125- 171: fccep KLDGlavsiL-YvnGeLTqAATRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 118- 164: ytveh KVDGlsvn-LyYeeGvLVyGATRGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 144- 190: ctvep KIDGlscs-LrYekGiLTqAVTRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 124- 170: lwvqp KVDGvavt-LvYrdGkLNkAISRGNGlkGEDwTqkVslIsAVPqtVsG plans F 6: 85.6838 5( 5) G-x(4,5)-L-x(0,1)-Y-x(2)-G-x-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 118- 161: elkld GlavsiL-YenGvLVsAATRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 128- 171: epkld GlavsiL-YvnGeLTqAATRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 121- 164: ehkvd Glsvn-LyYeeGvLVyGATRGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 147- 190: epkid Glscs-LrYekGiLTqAVTRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 127- 170: qpkvd Gvavt-LvYrdGkLNkAISRGNGlkGEDwTqkVslIsAVPqtVsG plans G 7: 77.8437 5( 5) L-x(3,4)-G-x-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 124- 161: lavsi Lyen-GvLVsAATRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 134- 171: lavsi Lyvn-GeLTqAATRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 126- 164: glsvn LyyeeGvLVyGATRGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 152- 190: glscs LryekGiLTqAVTRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 132- 170: gvavt LvyrdGkLNkAISRGNGlkGEDwTqkVslIsAVPqtVsG plans H 8: 77.3437 5( 5) L-x(3,4)-G-x(0,1)-L-[NTV]-x-[AG]-[AIV]-[ST]-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 124- 161: lavsi Lyen-GvLVsAATRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 134- 171: lavsi Lyvn-GeLTqAATRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 126- 164: glsvn LyyeeGvLVyGATRGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 152- 190: glscs LryekGiLTqAVTRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 132- 170: gvavt LvyrdGkLNkAISRGNGlkGEDwTqkVslIsAVPqtVsG plans I 9: 69.8908 5( 5) Y-x(2)-G-x-L-x(2,3)-A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 125- 161: avsil YenGvLvsaAt-RGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_ECOLI : 125- 161: avsil YenGvLvs-AatRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 135- 171: avsil YvnGeLtqaAt-RGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_HAEIN : 135- 171: avsil YvnGeLtq-AatRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 128- 164: svnly YeeGvLvygAt-RGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 154- 190: scslr YekGiLtq-AvtRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 134- 170: avtlv YrdGkLnk-AisRGNGlkGEDwTqkVslIsAVPqtVsG plans J 10: 65.7207 5( 5) G-x-L-x(2,3)-A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 128- 161: ilyen GvLvsaAt-RGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_ECOLI : 128- 161: ilyen GvLvs-AatRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 138- 171: ilyvn GeLtqaAt-RGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_HAEIN : 138- 171: ilyvn GeLtq-AatRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 131- 164: lyyee GvLvygAt-RGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 157- 190: lryek GiLtq-AvtRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 137- 170: lvyrd GkLnk-AisRGNGlkGEDwTqkVslIsAVPqtVsG plans K 11: 61.5507 5( 5) L-x(2,3)-A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 130- 161: yengv LvsaAt-RGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_ECOLI : 130- 161: yengv Lvs-AatRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 140- 171: yvnge LtqaAt-RGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_HAEIN : 140- 171: yvnge Ltq-AatRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 133- 164: yeegv LvygAt-RGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 159- 190: yekgi Ltq-AvtRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 139- 170: yrdgk Lnk-AisRGNGlkGEDwTqkVslIsAVPqtVsG plans L 12: 57.8989 5( 5) R-[AN]-x-[AV]-A-G-x(0,1)-L-x(0,2)-R-Q-x-D-[PS]-[DNR]-x(2)-[ANS]-x(2)-[GPS]-[LV]-x(4)-[HWY]-[AGP]-x-G Occurences: 5(5) DNLJ_ECOLI : 200- 228: vfanp RNaAAGsL--RQlDPRitAkrPLtffcYGvG vlegg DNLJ_HAEIN : 210- 238: tfanp RNaAAGsL--RQlDPNitSkrPLvlnaYGiG iaegv DNLJ_THETH : 201- 229: ifknp RNaAAGsL--RQkDPRitAkrGLratfYAlG lglee DNLJ_ZYMMO : 229- 257: lfanp RNaAAGsL--RQlDPNitArrSLrflaHGwG eatsl YICF_ECOLI : 199- 228: ggina RAkVAG-LmmRQdDSDtlNslGVfvwaWPdG pqlms M 13: 57.8806 7( 5) A-x(1,2)-R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 7(5) DNLJ_ECOLI : 133- 161: gvlvs AatRGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_ECOLI : 134- 161: vlvsa At-RGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 143- 171: geltq AatRGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_HAEIN : 144- 171: eltqa At-RGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 137- 164: vlvyg At-RGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 162- 190: giltq AvtRGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 142- 170: gklnk AisRGNGlkGEDwTqkVslIsAVPqtVsG plans N 14: 54.2106 5( 5) R-G-[DN]-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 136- 161: vsaat RGDGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 146- 171: tqaat RGDGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 139- 164: vygat RGDGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 165- 190: tqavt RGDGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 145- 170: nkais RGNGlkGEDwTqkVslIsAVPqtVsG plans O 15: 50.3454 5( 5) N-[AP]-R-x(0,1)-A-x(1,2)-A-G-x-[LM]-x-[QR]-x-D-[DP]-[NRS]-x-T-x(2)-[RS]-x-[GL] Occurences: 5(5) DNLJ_ECOLI : 198- 220: gkvfa NPRnAa-AGsLrQlDPRiTakRpL tffcy DNLJ_HAEIN : 208- 230: ektfa NPRnAa-AGsLrQlDPNiTskRpL vlnay DNLJ_THETH : 199- 221: erifk NPRnAa-AGsLrQkDPRiTakRgL ratfy DNLJ_ZYMMO : 227- 249: kklfa NPRnAa-AGsLrQlDPNiTarRsL rflah YICF_ECOLI : 197- 219: qmggi NAR-AkvAGlMmRqDDSdTlnSlG vfvwa P 16: 50.3069 5( 5) G-D-x(2,3)-V-x(2,3)-A-G-[DGQ]-[GV]-I-P-[EQR]-[IV]-x(2)-[NV]-[LV]-x(4)-[DEPT]-x-[DENPT] Occurences: 5(5) DNLJ_ECOLI : 372- 398: lglri GDkv-VirrAGDVIPQVvnVVlserPeD trevv DNLJ_HAEIN : 382- 408: lniai GDtv-VirrAGDVIPQIigVLherrPdN akpii DNLJ_THETH : 376- 402: ldiri GDwvlVhk-AGGVIPEVlrVLkerrTgE erpir DNLJ_ZYMMO : 400- 426: lgvrp GDrvlVqr-AGDVIPQIveNLtpdvDrP iwhfp YICF_ECOLI : 362- 388: wdiap GDqilVsl-AGQGIPRIddVVwrgaErT kptpp Q 17: 46.8666 5( 5) G-x-G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 137- 161: saatr GdGttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 147- 171: qaatr GdGttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 140- 164: ygatr GdGevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 166- 190: qavtr GdGviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 146- 170: kaisr GnGlkGEDwTqkVslIsAVPqtVsG plans R 18: 46.6243 5( 5) N-A-x(0,1)-A-x(0,2)-A-G-x-[LM]-x-[QR]-x-D-[DP]-[NRS]-x-T-x(2)-[RS]-x-[GL] Occurences: 5(5) DNLJ_ECOLI : 201- 220: fanpr NA-A--AGsLrQlDPRiTakRpL tffcy DNLJ_HAEIN : 211- 230: fanpr NA-A--AGsLrQlDPNiTskRpL vlnay DNLJ_THETH : 202- 221: fknpr NA-A--AGsLrQkDPRiTakRgL ratfy DNLJ_ZYMMO : 230- 249: fanpr NA-A--AGsLrQlDPNiTarRsL rflah YICF_ECOLI : 197- 219: qmggi NArAkvAGlMmRqDDSdTlnSlG vfvwa S 19: 46.1369 5( 5) D-x(2,3)-V-x(2,3)-A-G-[DGQ]-[GV]-I-P-[EQR]-[IV]-x(2)-[NV]-[LV]-x(4)-[DEPT]-x-[DENPT] Occurences: 5(5) DNLJ_ECOLI : 373- 398: glrig Dkv-VirrAGDVIPQVvnVVlserPeD trevv DNLJ_HAEIN : 383- 408: niaig Dtv-VirrAGDVIPQIigVLherrPdN akpii DNLJ_THETH : 377- 402: dirig DwvlVhk-AGGVIPEVlrVLkerrTgE erpir DNLJ_ZYMMO : 401- 426: gvrpg DrvlVqr-AGDVIPQIveNLtpdvDrP iwhfp YICF_ECOLI : 363- 388: diapg DqilVsl-AGQGIPRIddVVwrgaErT kptpp T 20: 42.6965 5( 5) G-x(2)-G-E-[DE]-x-T-x(2)-[ILV]-x(2)-I-x-[ADNT]-[IV]-P-x(2)-[LV]-x-[GT] Occurences: 5(5) DNLJ_ECOLI : 139- 161: atrgd GttGEDiTsnVrtIrAIPlkLhG enipa DNLJ_HAEIN : 149- 171: atrgd GttGEDiTanIrtIrNVPlqLlT dnppa DNLJ_THETH : 142- 164: atrgd GevGEEvTqnLltIpTIPrrLkG vperl DNLJ_ZYMMO : 168- 190: vtrgd GviGEDvTpnVrvIdDIPktLkG dnwpe YICF_ECOLI : 148- 170: isrgn GlkGEDwTqkVslIsAVPqtVsG plans Number of patterns evaluated by Pratt:38204 Total running time: 21 seconds