------------------------------------------------------------ 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 8 sequences from file LAMP_1 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 8 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 LAMP_1.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: LMP1_BOVIN 408 LMP1_CHICK 414 LMP1_HUMAN 416 LMP1_MOUSE 406 LMP1_RAT 407 LMP2_HUMAN 408 LMP2_MOUSE 415 LMP2_RAT 411 Pratt run started at Thu Feb 6 20:10:18 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 78.2310 9( 8) D-x(1,2)-N-x(1,2)-L-x-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 2: 78.2310 9( 8) D-x(0,1)-N-x(1,2)-L-x-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 3: 78.2310 8( 8) C-x(4,5)-N-x(1,2)-L-x-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 4: 74.5609 11( 8) N-x(1,2)-L-x-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 5: 74.0609 11( 8) N-x(1,2)-L-x(0,1)-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 6: 74.0609 11( 8) N-x(0,2)-L-x-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 7: 73.5609 11( 8) N-x(0,2)-L-x(0,1)-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 8: 70.3909 8( 8) L-x(0,1)-P-I-x-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 9: 62.5508 8( 8) P-x(2)-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 10: 62.0508 9( 8) I-x(0,1)-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 11: 61.5508 8( 8) P-x(0,2)-V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 12: 61.0508 13( 8) P-x(3,5)-P-x(2,3)-P-x(4)-Y-x(5)-N-x-T-C-x-L-A-x-M-x-L-Q-L-N-x-T 13: 58.3807 8( 8) V-G-x-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 14: 57.8807 8( 8) P-x(2,3)-P-x(4)-Y-x(5)-N-x-T-C-x-L-A-x-M-x-L-Q-L-N-x-T 15: 57.3807 8( 8) A-x(4)-V-L-I-x(0,1)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y-x(0,1)-Q 16: 57.3807 8( 8) V-x(0,1)-G-x(0,1)-A-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 17: 57.3807 8( 8) V-x(0,1)-G-A-x(0,1)-L-x-G-x(4)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 18: 57.3807 8( 8) P-x(2,3)-P-x(3,4)-Y-x(5)-N-x-T-C-x-L-A-x-M-x-L-Q-L-N-x-T 19: 56.8807 8( 8) A-x-L-x(0,2)-V-L-I-x(0,1)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y 20: 53.2107 8( 8) V-L-I-x(0,1)-V-L-x-A-Y-x(2)-G-x-K-x(2)-H-x-G-Y-x(0,1)-Q Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 129.7381 9( 8) D-x(1,2)-N-x(1,2)-L-[IV]-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] B 2: 129.7381 9( 8) D-x(0,1)-N-x(1,2)-L-[IV]-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] C 3: 129.7381 8( 8) C-x(4,5)-N-x(1,2)-L-[IV]-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] D 4: 122.8432 11( 8) N-x(1,2)-L-x-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] E 5: 122.3432 11( 8) N-x(1,2)-L-x(0,1)-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] F 6: 122.3432 11( 8) N-x(0,2)-L-x-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] G 7: 121.8432 11( 8) N-x(0,2)-L-x(0,1)-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] H 8: 118.6732 8( 8) L-x(0,1)-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] I 9: 107.5412 8( 8) P-x(2)-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] J 10: 107.0412 9( 8) I-x(0,1)-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] K 11: 106.5412 8( 8) P-x(0,2)-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] L 12: 102.7446 13( 8) P-x(3,5)-P-x(2,3)-P-[AEST]-[AV]-x(2)-Y-[NST]-[IV]-x-[GN]-[ADGNST]-N-[ADGT]-T-C-[LV]-L-A-[ST]-M-[AG]-L-Q-L-N-[ILV]-T-x(2)-[KR]-x-[ADP]-x(3)-[GNV]-x-[DNR] M 13: 100.2010 8( 8) V-G-x-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] N 14: 99.2010 8( 8) V-x(0,1)-G-x(0,1)-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] O 15: 99.2010 8( 8) V-x(0,1)-G-A-x(0,1)-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] P 16: 97.3811 8( 8) P-x(2,3)-P-x(4)-Y-[NST]-[IV]-x-[GN]-[ADGNST]-N-[ADGT]-T-C-[LV]-L-A-[ST]-M-[AG]-L-Q-L-N-[ILV]-T-x(2)-[KR]-x-[ADP]-x(3)-[GNV]-x-[DNR]-x(2)-[NT] Q 17: 96.8811 8( 8) P-x(2,3)-P-x(3,4)-Y-[NST]-[IV]-x-[GN]-[ADGNST]-N-[ADGT]-T-C-[LV]-L-A-[ST]-M-[AG]-L-Q-L-N-[ILV]-T-x(2)-[KR]-x-[ADP]-x(3)-[GNV]-x-[DNR]-x(2)-[NT] R 18: 86.2159 8( 8) A-[AL]-[AL]-[AG]-[GL]-V-L-I-x(0,1)-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-x(0,1)-Q S 19: 85.7603 8( 8) A-[AG]-L-x(0,2)-V-L-I-x(0,1)-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] T 20: 69.3652 8( 8) V-L-I-x(0,1)-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-x(0,1)-Q Best patterns with alignements: fitness hits(seqs) Pattern A 1: 129.7381 9( 8) D-x(1,2)-N-x(1,2)-L-[IV]-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 9(8) LMP1_BOVIN : 369- 408: eecql De-NsmLIPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 375- 414: eecql DenNm-LIPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 375- 414: eecql De-NnmLIPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 377- 416: eecll De-NstLIPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 367- 406: eecvq DgnNm-LIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 367- 406: eecvq Dg-NnmLIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 368- 407: eecvq DgnNm-LIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 368- 407: eecvq Dg-NnmLIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 369- 408: qdcsa DddNf-LVPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_HUMAN : 370- 408: dcsad Dd-Nf-LVPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 376- 415: qdcsa DedNf-LVPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 372- 411: qdcsa DedNf-LVPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF B 2: 129.7381 9( 8) D-x(0,1)-N-x(1,2)-L-[IV]-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 9(8) LMP1_BOVIN : 369- 408: eecql DeNsmLIPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 375- 414: eecql DeNnmLIPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 377- 416: eecll DeNstLIPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 367- 406: eecvq DgNnmLIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 368- 407: eecvq DgNnmLIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 370- 408: dcsad DdNf-LVPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_HUMAN : 371- 408: csadd D-Nf-LVPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 378- 415: csade D-Nf-LVPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 374- 411: csade D-Nf-LVPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF C 3: 129.7381 8( 8) C-x(4,5)-N-x(1,2)-L-[IV]-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 366- 408: gpvee Cqlde-NsmLIPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 372- 414: gamee CqldenNm-LIPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 372- 414: gamee Cqlde-NnmLIPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 374- 416: gsvee Cllde-NstLIPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 364- 406: gsvee CvqdgnNm-LIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 364- 406: gsvee Cvqdg-NnmLIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 365- 407: gsvee CvqdgnNm-LIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 365- 407: gsvee Cvqdg-NnmLIPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 366- 408: staqd CsadddNf-LVPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 373- 415: staqd CsadedNf-LVPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 369- 411: staqd CsadedNf-LVPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF D 4: 122.8432 11( 8) N-x(1,2)-L-x-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 11(8) LMP1_BOVIN : 371- 408: cqlde NsmLiPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 377- 414: cqlde NnmLiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 378- 414: qlden Nm-LiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 379- 416: cllde NstLiPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 369- 406: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 370- 406: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 370- 407: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 371- 407: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 372- 408: saddd Nf-LvPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 379- 415: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 375- 411: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF E 5: 122.3432 11( 8) N-x(1,2)-L-x(0,1)-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 11(8) LMP1_BOVIN : 371- 408: cqlde NsmLiPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 377- 414: cqlde NnmLiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 378- 414: qlden Nm-LiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 379- 416: cllde NstLiPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 369- 406: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 370- 406: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 370- 407: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 371- 407: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 372- 408: saddd Nf-LvPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 379- 415: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 375- 411: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF F 6: 122.3432 11( 8) N-x(0,2)-L-x-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 11(8) LMP1_BOVIN : 371- 408: cqlde NsmLiPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 377- 414: cqlde NnmLiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 378- 414: qlden Nm-LiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 379- 416: cllde NstLiPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 369- 406: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 370- 406: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 370- 407: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 371- 407: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 372- 408: saddd Nf-LvPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 379- 415: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 375- 411: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF G 7: 121.8432 11( 8) N-x(0,2)-L-x(0,1)-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 11(8) LMP1_BOVIN : 371- 408: cqlde NsmLiPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 377- 414: cqlde NnmLiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 378- 414: qlden Nm-LiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 379- 416: cllde NstLiPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 369- 406: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 370- 406: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 370- 407: cvqdg NnmLiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 371- 407: vqdgn Nm-LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 372- 408: saddd Nf-LvPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 379- 415: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 375- 411: saded Nf-LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF H 8: 118.6732 8( 8) L-x(0,1)-P-I-[AI]-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 374- 408: densm LiPIAVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 380- 414: dennm LiPIIVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 382- 416: denst LiPIAVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 372- 406: dgnnm LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 373- 407: dgnnm LiPIAVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 374- 408: dddnf LvPIAVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 381- 415: dednf LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 377- 411: dednf LvPIAVGAALGGVLILVLLAYFIGlKRhHTGYEQF I 9: 107.5412 8( 8) P-x(2)-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 376- 408: nsmli PiaVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 382- 414: nnmli PiiVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 384- 416: nstli PiaVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 374- 406: nnmli PiaVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 375- 407: nnmli PiaVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 376- 408: dnflv PiaVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 383- 415: dnflv PiaVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 379- 411: dnflv PiaVGAALGGVLILVLLAYFIGlKRhHTGYEQF J 10: 107.0412 9( 8) I-x(0,1)-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 9(8) LMP1_BOVIN : 377- 408: smlip IaVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 383- 414: nmlip IiVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_CHICK : 384- 414: mlipi I-VGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 385- 416: stlip IaVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 375- 406: nmlip IaVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 376- 407: nmlip IaVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 377- 408: nflvp IaVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 384- 415: nflvp IaVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 380- 411: nflvp IaVGAALGGVLILVLLAYFIGlKRhHTGYEQF K 11: 106.5412 8( 8) P-x(0,2)-V-G-[AG]-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 376- 408: nsmli PiaVGGALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 382- 414: nnmli PiiVGAALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 384- 416: nstli PiaVGGALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 374- 406: nnmli PiaVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 375- 407: nnmli PiaVGGALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 376- 408: dnflv PiaVGAALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 383- 415: dnflv PiaVGAALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 379- 411: dnflv PiaVGAALGGVLILVLLAYFIGlKRhHTGYEQF L 12: 102.7446 13( 8) P-x(3,5)-P-x(2,3)-P-[AEST]-[AV]-x(2)-Y-[NST]-[IV]-x-[GN]-[ADGNST]-N-[ADGT]-T-C-[LV]-L-A-[ST]-M-[AG]-L-Q-L-N-[ILV]-T-x(2)-[KR]-x-[ADP]-x(3)-[GNV]-x-[DNR] Occurences: 13(8) LMP1_BOVIN : 199- 245: ttppq PaptpaPas-PAVfrYNVsGSNGTCLLASMGLQLNVTyrRvDnktVtR efnvn LMP1_BOVIN : 201- 245: ppqpa Ptpa--Pas-PAVfrYNVsGSNGTCLLASMGLQLNVTyrRvDnktVtR efnvn LMP1_CHICK : 205- 251: vptts PaptaaPss-PAVgkYNVtGANGTCVLASMGLQLNITyvKkDekmGlD llnfi LMP1_CHICK : 207- 251: ttspa Ptaa--Pss-PAVgkYNVtGANGTCVLASMGLQLNITyvKkDekmGlD llnfi LMP1_HUMAN : 207- 253: papps PspspvPks-PSVdkYNVsGTNGTCLLASMGLQLNLTyeRkDnttVtR llnin LMP1_HUMAN : 209- 253: ppsps Pspv--Pks-PSVdkYNVsGTNGTCLLASMGLQLNLTyeRkDnttVtR llnin LMP1_MOUSE : 199- 245: tgpps PspplvPtn-PTVskYNVtGNNGTCLLASMALQLNITylKkDnktVtR afnis LMP1_MOUSE : 201- 245: ppsps Pplv--Ptn-PTVskYNVtGNNGTCLLASMALQLNITylKkDnktVtR afnis LMP1_RAT : 200- 246: tgpps PspplvPtn-PSVskYNVtGDNGTCLLASMALQLNITymKkDnttVtR afnin LMP1_RAT : 202- 246: ppsps Pplv--Ptn-PSVskYNVtGDNGTCLLASMALQLNITymKkDnttVtR afnin LMP2_HUMAN : 208- 255: ttvps PtttptPkekPEAgtYSVnNGNDTCLLATMGLQLNITqdKvAsviNiN pntth LMP2_MOUSE : 215- 260: tptst Ptpt--PtptPTVgnYSIrNGNTTCLLATMGLQLNITeeKvPfifNiN pattn LMP2_RAT : 211- 256: tttlt Ptsi--PvptPTVgnYTIsNGNATCLLATMGLQLNITeeKvPfifNiN pattn M 13: 100.2010 8( 8) V-G-x-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 379- 408: lipia VGgALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 385- 414: lipii VGaALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 387- 416: lipia VGgALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 377- 406: lipia VGgALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 378- 407: lipia VGgALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 379- 408: lvpia VGaALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 386- 415: lvpia VGaALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 382- 411: lvpia VGaALGGVLILVLLAYFIGlKRhHTGYEQF N 14: 99.2010 8( 8) V-x(0,1)-G-x(0,1)-A-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 379- 408: lipia VgG-ALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_BOVIN : 379- 408: lipia V-GgALAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 385- 414: lipii V-GaALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 387- 416: lipia VgG-ALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_HUMAN : 387- 416: lipia V-GgALAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 377- 406: lipia VgG-ALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_MOUSE : 377- 406: lipia V-GgALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 378- 407: lipia VgG-ALAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 378- 407: lipia V-GgALAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 379- 408: lvpia V-GaALAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 386- 415: lvpia V-GaALGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 382- 411: lvpia V-GaALGGVLILVLLAYFIGlKRhHTGYEQF O 15: 99.2010 8( 8) V-x(0,1)-G-A-x(0,1)-L-[AG]-G-[LV]-[LV]-[IL]-[IL]-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 379- 408: lipia VgGA-LAGLVLIVLLAYLIGrKRsHAGYQTI LMP1_CHICK : 385- 414: lipii V-GAaLAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 387- 416: lipia VgGA-LAGLVLIVLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 377- 406: lipia VgGA-LAGLVLIVLIAYLIGrKRsHAGYQTI LMP1_RAT : 378- 407: lipia VgGA-LAGLVLIVLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 379- 408: lvpia V-GAaLAGVLILVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 386- 415: lvpia V-GAaLGGVLILVLLAYFIGlKRhHTGYEQF LMP2_RAT : 382- 411: lvpia V-GAaLGGVLILVLLAYFIGlKRhHTGYEQF P 16: 97.3811 8( 8) P-x(2,3)-P-x(4)-Y-[NST]-[IV]-x-[GN]-[ADGNST]-N-[ADGT]-T-C-[LV]-L-A-[ST]-M-[AG]-L-Q-L-N-[ILV]-T-x(2)-[KR]-x-[ADP]-x(3)-[GNV]-x-[DNR]-x(2)-[NT] Occurences: 8(8) LMP1_BOVIN : 205- 248: aptpa Pas-PavfrYNVsGSNGTCLLASMGLQLNVTyrRvDnktVtRefN vnpnk LMP1_CHICK : 211- 254: aptaa Pss-PavgkYNVtGANGTCVLASMGLQLNITyvKkDekmGlDllN fiphn LMP1_HUMAN : 213- 256: spspv Pks-PsvdkYNVsGTNGTCLLASMGLQLNLTyeRkDnttVtRllN inpnk LMP1_MOUSE : 205- 248: spplv Ptn-PtvskYNVtGNNGTCLLASMALQLNITylKkDnktVtRafN ispnd LMP1_RAT : 206- 249: spplv Ptn-PsvskYNVtGDNGTCLLASMALQLNITymKkDnttVtRafN inpsd LMP2_HUMAN : 214- 258: tttpt PkekPeagtYSVnNGNDTCLLATMGLQLNITqdKvAsviNiNpnT thstg LMP2_MOUSE : 219- 263: tptpt PtptPtvgnYSIrNGNTTCLLATMGLQLNITeeKvPfifNiNpaT tnftg LMP2_RAT : 215- 259: tptsi PvptPtvgnYTIsNGNATCLLATMGLQLNITeeKvPfifNiNpaT tnftg Q 17: 96.8811 8( 8) P-x(2,3)-P-x(3,4)-Y-[NST]-[IV]-x-[GN]-[ADGNST]-N-[ADGT]-T-C-[LV]-L-A-[ST]-M-[AG]-L-Q-L-N-[ILV]-T-x(2)-[KR]-x-[ADP]-x(3)-[GNV]-x-[DNR]-x(2)-[NT] Occurences: 8(8) LMP1_BOVIN : 205- 248: aptpa Pas-PavfrYNVsGSNGTCLLASMGLQLNVTyrRvDnktVtRefN vnpnk LMP1_CHICK : 211- 254: aptaa Pss-PavgkYNVtGANGTCVLASMGLQLNITyvKkDekmGlDllN fiphn LMP1_HUMAN : 213- 256: spspv Pks-PsvdkYNVsGTNGTCLLASMGLQLNLTyeRkDnttVtRllN inpnk LMP1_MOUSE : 205- 248: spplv Ptn-PtvskYNVtGNNGTCLLASMALQLNITylKkDnktVtRafN ispnd LMP1_RAT : 206- 249: spplv Ptn-PsvskYNVtGDNGTCLLASMALQLNITymKkDnttVtRafN inpsd LMP2_HUMAN : 214- 258: tttpt PkekPeagtYSVnNGNDTCLLATMGLQLNITqdKvAsviNiNpnT thstg LMP2_MOUSE : 219- 263: tptpt PtptPtvgnYSIrNGNTTCLLATMGLQLNITeeKvPfifNiNpaT tnftg LMP2_RAT : 215- 259: tptsi PvptPtvgnYTIsNGNATCLLATMGLQLNITeeKvPfifNiNpaT tnftg R 18: 86.2159 8( 8) A-[AL]-[AL]-[AG]-[GL]-V-L-I-x(0,1)-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-x(0,1)-Q Occurences: 8(8) LMP1_BOVIN : 382- 406: iavgg ALAGLVLI-VLLAYLIGrKRsHAGY-Q ti LMP1_CHICK : 388- 412: iivga ALAGLVLI-VLIAYLIGrKRsHAGY-Q ti LMP1_HUMAN : 390- 414: iavgg ALAGLVLI-VLIAYLVGrKRsHAGY-Q ti LMP1_MOUSE : 380- 404: iavgg ALAGLVLI-VLIAYLIGrKRsHAGY-Q ti LMP1_RAT : 381- 405: iavgg ALAGLVLI-VLIAYLIGrKRsHAGY-Q ti LMP2_HUMAN : 381- 407: piavg AALAGVLIlVLLAYFIGlKHhHAGYeQ f LMP2_MOUSE : 388- 414: piavg AALGGVLIlVLLAYFIGlKRhHTGYeQ f LMP2_RAT : 384- 410: piavg AALGGVLIlVLLAYFIGlKRhHTGYeQ f S 19: 85.7603 8( 8) A-[AG]-L-x(0,2)-V-L-I-x(0,1)-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-[EQ]-[QT]-[FI] Occurences: 8(8) LMP1_BOVIN : 384- 408: vggal AGL--VLI-VLLAYLIGrKRsHAGYQTI LMP1_CHICK : 390- 414: vgaal AGL--VLI-VLIAYLIGrKRsHAGYQTI LMP1_HUMAN : 392- 416: vggal AGL--VLI-VLIAYLVGrKRsHAGYQTI LMP1_MOUSE : 382- 406: vggal AGL--VLI-VLIAYLIGrKRsHAGYQTI LMP1_RAT : 383- 407: vggal AGL--VLI-VLIAYLIGrKRsHAGYQTI LMP2_HUMAN : 381- 408: piavg AALagVLIlVLLAYFIGlKHhHAGYEQF LMP2_MOUSE : 388- 415: piavg AALggVLIlVLLAYFIGlKRhHTGYEQF LMP2_RAT : 384- 411: piavg AALggVLIlVLLAYFIGlKRhHTGYEQF T 20: 69.3652 8( 8) V-L-I-x(0,1)-V-L-[IL]-A-Y-[FL]-[IV]-G-x-K-[HR]-x-H-[AT]-G-Y-x(0,1)-Q Occurences: 8(8) LMP1_BOVIN : 387- 406: alagl VLI-VLLAYLIGrKRsHAGY-Q ti LMP1_CHICK : 393- 412: alagl VLI-VLIAYLIGrKRsHAGY-Q ti LMP1_HUMAN : 395- 414: alagl VLI-VLIAYLVGrKRsHAGY-Q ti LMP1_MOUSE : 385- 404: alagl VLI-VLIAYLIGrKRsHAGY-Q ti LMP1_RAT : 386- 405: alagl VLI-VLIAYLIGrKRsHAGY-Q ti LMP2_HUMAN : 386- 407: aalag VLIlVLLAYFIGlKHhHAGYeQ f LMP2_MOUSE : 393- 414: aalgg VLIlVLLAYFIGlKRhHTGYeQ f LMP2_RAT : 389- 410: aalgg VLIlVLLAYFIGlKRhHTGYeQ f Number of patterns evaluated by Pratt:18090 Total running time: 9 seconds