------------------------------------------------------------ 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 12 sequences from file TOPOISOMERASE_I_EUK PATTERN CONSERVATION: CM: min Nr of Seqs to Match 12 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 TOPOISOMERASE_I_EUK.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: TOP1_ARATH 916 TOP1_CRIGR 767 TOP1_DROME 972 TOP1_HUMAN 765 TOP1_MOUSE 767 TOP1_SCHPO 812 TOP1_SFVKA 314 TOP1_USTMA 1019 TOP1_VACCV 314 TOP1_VARV 314 TOP1_XENLA 829 TOP1_YEAST 769 Pratt run started at Thu Feb 6 21:28:09 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 27.1904 12( 12) G-x(3)-K-x(2)-R-T-Y-x(0,2)-N-x(1,3)-T 2: 23.0203 12( 12) K-x(2)-R-T-Y-x(0,2)-N-x(1,3)-T 3: 19.8503 12( 12) L-x(3,5)-G-x(3)-K-x(2)-R-x-Y 4: 19.3503 12( 12) K-x(0,2)-R-x-Y-x-A-x(1,2)-T 5: 19.3503 12( 12) V-x(2)-T-x(0,2)-Y-N-x(2,3)-T 6: 19.3503 12( 12) L-x(3,4)-V-x(2)-T-x(0,2)-Y-N 7: 18.8503 12( 12) R-T-Y-x(0,2)-N-x(1,3)-T 8: 18.8503 12( 12) G-x(2)-K-x(1,3)-E-x(2,4)-T-x(5)-L 9: 16.6802 12( 12) L-x-T-x(3)-N-Y 10: 16.6802 12( 12) F-x-G-K-D 11: 16.6802 15( 12) G-x(3)-K-x(2)-R-x-Y 12: 16.6802 12( 12) F-x-G-x-D-S 13: 16.1802 12( 12) R-x-Y-x-A-x(1,2)-T 14: 16.1802 12( 12) I-x(4)-L-R-x(1,2)-G 15: 16.1802 13( 12) L-x-T-x-K-x(0,1)-N 16: 16.1802 15( 12) G-x(2,3)-K-x(2)-R-x-Y 17: 15.6802 12( 12) A-x(1,2)-V-x(2,3)-T-x(3)-S 18: 15.6802 12( 12) A-x(1,2)-V-x(1,2)-T-x(3)-S 19: 15.6802 12( 12) F-x-T-x(0,1)-N-x(1,2)-S 20: 15.6802 12( 12) L-x(2,4)-F-x-T-x(3)-S Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 45.7534 12( 12) G-[IL]-x-[AIL]-K-[DV]-[FL]-R-T-Y-x(0,2)-N-x(1,3)-T-[FLM]-x(3)-[FL] B 2: 39.9010 12( 12) I-[DR]-x(2)-[ADS]-L-R-x(1,2)-G-[GNV]-[EN]-x-[DEGST]-x(3)-[ANT]-x(3)-[GNV]-[CGSV]-x-[CST] C 3: 36.1027 12( 12) L-x-T-x(2)-[ILV]-N-Y-x(2)-[LP]-x(4)-[ASTV]-x(2)-K-x(2)-[DEGNS]-x(2)-[ILP]-[EPS] D 4: 35.6221 12( 12) K-[DV]-[FL]-R-T-Y-x(0,2)-N-x(1,3)-T-[FLM]-x(3)-[FL] E 5: 31.5607 12( 12) K-x(0,2)-R-[AT]-Y-x-A-x(1,2)-T-[FILMV]-x-[DEGQS]-x-[LV]-x(3)-[ENPST] F 6: 31.3356 12( 12) L-x(3,5)-G-x(3)-K-[GV]-x-R-[QT]-Y-x(2)-[GS]-x(4)-[DEGQS] G 7: 31.1198 12( 12) G-x(2)-K-x(1,3)-E-x(2,4)-T-x-[GS]-x(2)-[ST]-L-[KR]-x(3)-[AIV] H 8: 30.3991 12( 12) F-[LPV]-G-x-D-S-x(4)-[ENQ]-x-[FLV]-x-[GIV]-x(3)-[DV] I 9: 30.0606 12( 12) F-[LPV]-G-K-D-x-[IMV]-x-[FHY]-x(3)-[LV]-x(2)-[DEST] J 10: 28.3906 12( 12) R-[AT]-Y-x-A-x(1,2)-T-[FILMV]-x-[DEGQS]-x-[LV]-x(3)-[ENPST] K 11: 28.1656 12( 12) G-x(3)-K-[GV]-x-R-[QT]-Y-x(2)-[GS]-x(4)-[DEGQS] L 12: 27.6656 12( 12) G-x(2,3)-K-[GV]-x-R-[QT]-Y-x(2)-[GS]-x(4)-[DEGQS] M 13: 26.8456 12( 12) L-x(3,4)-V-x(2)-T-x(0,2)-Y-N-x(3)-[NT]-[FLMV]-x-[DEGQS] N 14: 25.2260 12( 12) V-x(2)-T-x(0,2)-Y-N-x(2,3)-T-x(4)-[IL]-x(3)-[EPT] O 15: 24.9954 12( 12) R-T-Y-x(0,2)-N-x(1,3)-T-[FLM]-x(3)-[FL] P 16: 24.1811 12( 12) L-x(2,4)-F-x-T-x-[NV]-x-S-x-[NST]-x(4)-[ILP] Q 17: 22.1934 12( 12) A-x(1,2)-V-x(2,3)-T-x-[NS]-[AI]-S R 18: 22.1934 12( 12) A-x(1,2)-V-x(1,2)-T-x-[NS]-[AI]-S S 19: 20.9723 12( 12) F-x-T-x(0,1)-N-x(1,2)-S-x-[NST]-x(4)-[ILP] T 20: 16.1802 13( 12) L-x-T-x-K-x(0,1)-N Best patterns with alignements: fitness hits(seqs) Pattern A 1: 45.7534 12( 12) G-[IL]-x-[AIL]-K-[DV]-[FL]-R-T-Y-x(0,2)-N-x(1,3)-T-[FLM]-x(3)-[FL] Occurences: 12(12) TOP1_ARATH : 729- 748: kelvp GLtAKVFRTY--NasiTLdemL sqetk TOP1_CRIGR : 585- 604: qdlme GLtAKVFRTY--NasiTLqqqL kelta TOP1_DROME : 805- 824: kelme GLtAKVFRTY--NaskTLqsqL dlltd TOP1_HUMAN : 583- 602: qdlme GLtAKVFRTY--NasiTLqqqL kelta TOP1_MOUSE : 585- 604: qdlme GLtAKVFRTY--NasiTLqqqL kelta TOP1_SCHPO : 555- 574: tslmd GLsAKVFRTY--NasyTMaeeL kkmpk TOP1_SFVKA : 215- 234: avqqf GIrLKDLRTYgvNy--TFlynF wtnvk TOP1_USTMA : 554- 573: skymk GLsAKVFRTY--NasvTFqglL eqtee TOP1_VACCV : 216- 235: cikqf GIrIKDLRTYgvNy--TFlynF wtnvk TOP1_VARV : 216- 235: cikqf GIrIKDLRTYgvNy--TFlynF wtnvk TOP1_XENLA : 639- 658: qdlme GLtAKVFRTY--NasiTLqqqL deltn TOP1_YEAST : 510- 529: qnymp GLtAKVFRTY--NaskTMqdqL dlipn B 2: 39.9010 12( 12) I-[DR]-x(2)-[ADS]-L-R-x(1,2)-G-[GNV]-[EN]-x-[DEGST]-x(3)-[ANT]-x(3)-[GNV]-[CGSV]-x-[CST] Occurences: 12(12) TOP1_ARATH : 634- 657: vatyl IDklALRa-GNEkDddeAdtvGCcT lkvgn TOP1_CRIGR : 484- 507: valyf IDklALRa-GNEkEegeTadtVScC slrve TOP1_DROME : 705- 728: valyf IDklALRa-GNEkDedqAdtvGCcS lrveh TOP1_HUMAN : 482- 505: valyf IDklALRa-GNEkEegeTadtVGcC slrve TOP1_MOUSE : 484- 507: valyf IDklALRa-GNEkEegeTadtVGcC slrve TOP1_SCHPO : 459- 482: tamyl IDvfALRa-GNEkGedeAdtvGCcS lryeh TOP1_SFVKA : 216- 240: vqqfg IRlkDLRtyGVNyTflyNfwtNVkS lnpip TOP1_USTMA : 436- 459: tivcl IDnfSLRa-GNEkGedeTetyGVcS lrceh TOP1_VACCV : 217- 241: ikqfg IRikDLRtyGVNyTflyNfwtNVkS isplp TOP1_VARV : 217- 241: ikqfg IRikDLRtyGVNyTflyNfwtNVkS isplp TOP1_XENLA : 538- 561: valyf IDklALRa-GNEkEegeTadtVGcC slrve TOP1_YEAST : 414- 437: vaiyl IDvfALRa-GGEkSedeAdtvGCcS lryeh C 3: 36.1027 12( 12) L-x-T-x(2)-[ILV]-N-Y-x(2)-[LP]-x(4)-[ASTV]-x(2)-K-x(2)-[DEGNS]-x(2)-[ILP]-[EPS] Occurences: 12(12) TOP1_ARATH : 865- 890: lktva LgTskINYldPritvAwcKrhEvpIE kiftk TOP1_CRIGR : 718- 743: nkqia LgTskLNYldPritvAwcKkwGvpIE kiynk TOP1_DROME : 923- 948: nktia LgTskLNYldPrisvAwcKkhDvpIE kifnk TOP1_HUMAN : 716- 741: nkqia LgTskLNYldPritvAwcKkwGvpIE kiynk TOP1_MOUSE : 718- 743: nkqia LgTskLNYldPritvAwcKkwGvpIE kiynk TOP1_SCHPO : 764- 789: nktta LgTskINYidPrltySfsKreDvpIE klfsk TOP1_SFVKA : 221- 246: irlkd LrTygVNYtfLynfwTnvKslNpiPP ikkmi TOP1_USTMA : 815- 840: tsdva LsTskLNYidPritlAwlKewDdrLS dlgqg TOP1_VACCV : 222- 247: irikd LrTygVNYtfLynfwTnvKsiSplPS pkkli TOP1_VARV : 222- 247: irikd LrTygVNYtfLynfwTnvKsiSplPS pkkli TOP1_XENLA : 772- 797: nkqia LgTskLNYldPrisvAwcKkyGvpIE kiynk TOP1_YEAST : 720- 745: nsqvs LgTskINYidPrlsvVfcKkyDvpIE kiftk D 4: 35.6221 12( 12) K-[DV]-[FL]-R-T-Y-x(0,2)-N-x(1,3)-T-[FLM]-x(3)-[FL] Occurences: 12(12) TOP1_ARATH : 733- 748: pglta KVFRTY--NasiTLdemL sqetk TOP1_CRIGR : 589- 604: eglta KVFRTY--NasiTLqqqL kelta TOP1_DROME : 809- 824: eglta KVFRTY--NaskTLqsqL dlltd TOP1_HUMAN : 587- 602: eglta KVFRTY--NasiTLqqqL kelta TOP1_MOUSE : 589- 604: eglta KVFRTY--NasiTLqqqL kelta TOP1_SCHPO : 559- 574: dglsa KVFRTY--NasyTMaeeL kkmpk TOP1_SFVKA : 219- 234: fgirl KDLRTYgvNy--TFlynF wtnvk TOP1_USTMA : 558- 573: kglsa KVFRTY--NasvTFqglL eqtee TOP1_VACCV : 220- 235: fgiri KDLRTYgvNy--TFlynF wtnvk TOP1_VARV : 220- 235: fgiri KDLRTYgvNy--TFlynF wtnvk TOP1_XENLA : 643- 658: eglta KVFRTY--NasiTLqqqL deltn TOP1_YEAST : 514- 529: pglta KVFRTY--NaskTMqdqL dlipn E 5: 31.5607 12( 12) K-x(0,2)-R-[AT]-Y-x-A-x(1,2)-T-[FILMV]-x-[DEGQS]-x-[LV]-x(3)-[ENPST] Occurences: 12(12) TOP1_ARATH : 733- 752: pglta KvfRTYnAsiTLdEmLsqeT kdgdv TOP1_CRIGR : 589- 608: eglta KvfRTYnAsiTLqQqLkelT apden TOP1_DROME : 809- 828: eglta KvfRTYnAskTLqSqLdllT dpsat TOP1_HUMAN : 587- 606: eglta KvfRTYnAsiTLqQqLkelT apden TOP1_MOUSE : 589- 608: eglta KvfRTYnAsiTLqQqLkelT apden TOP1_SCHPO : 559- 578: dglsa KvfRTYnAsyTMaEeLkkmP knltl TOP1_SFVKA : 270- 286: tpsis K--RAYiAn-TVlEyLthdS elint TOP1_USTMA : 558- 577: kglsa KvfRTYnAsvTFqGlLeqtE ewlks TOP1_VACCV : 271- 287: tpsis K--RAYmAt-TIlEmVkdkN fldvv TOP1_VARV : 271- 287: tpsis K--RAYmAt-TIlEmVkdkN fldvv TOP1_XENLA : 643- 662: eglta KvfRTYnAsiTLqQqLdelT nsddn TOP1_YEAST : 514- 533: pglta KvfRTYnAskTMqDqLdliP nkgsv F 6: 31.3356 12( 12) L-x(3,5)-G-x(3)-K-[GV]-x-R-[QT]-Y-x(2)-[GS]-x(4)-[DEGQS] Occurences: 12(12) TOP1_ARATH : 723- 746: klnah LkelvpGltaKVfRTYnaSitldE mlsqe TOP1_CRIGR : 579- 602: ilnkh LqdlmeGltaKVfRTYnaSitlqQ qlkel TOP1_DROME : 799- 822: vlneh LkelmeGltaKVfRTYnaSktlqS qldll TOP1_HUMAN : 577- 600: ilnkh LqdlmeGltaKVfRTYnaSitlqQ qlkel TOP1_MOUSE : 579- 602: ilnkh LqdlmeGltaKVfRTYnaSitlqQ qlkel TOP1_SCHPO : 549- 572: slnky LtslmdGlsaKVfRTYnaSytmaE elkkm TOP1_SFVKA : 57- 78: qslsr Lifv--GldsKGrRQYfyGkmhvQ rrnsa TOP1_USTMA : 548- 571: svnqf LskymkGlsaKVfRTYnaSvtfqG lleqt TOP1_VACCV : 57- 78: ealtr Lifv--GsdsKGrRQYfyGkmhvQ nrnak TOP1_VARV : 57- 78: ealtr Lifv--GsdsKGrRQYfyGkmhvQ nrnak TOP1_XENLA : 633- 656: ilnkh LqdlmeGltaKVfRTYnaSitlqQ qldel TOP1_YEAST : 504- 527: ilnky LqnympGltaKVfRTYnaSktmqD qldli G 7: 31.1198 12( 12) G-x(2)-K-x(1,3)-E-x(2,4)-T-x-[GS]-x(2)-[ST]-L-[KR]-x(3)-[AIV] Occurences: 12(12) TOP1_ARATH : 642- 663: lalra GneKdddEad--TvGccTLKvgnV ecipp TOP1_CRIGR : 492- 514: lalra GneKeegEtad-TvSccSLRvehI nlhpe TOP1_DROME : 713- 734: lalra GneKd--EdqadTvGccSLRvehV qlhke TOP1_HUMAN : 490- 512: lalra GneKeegEtad-TvGccSLRvehI nlhpe TOP1_MOUSE : 492- 514: lalra GneKeegEtad-TvGccSLRvehI nlhpe TOP1_SCHPO : 467- 488: falra GneKgedEad--TvGccSLRyehV tlkpp TOP1_SCHPO : 467- 488: falra GneKg--EdeadTvGccSLRyehV tlkpp TOP1_SFVKA : 131- 152: ffirm GkvKylkEnd--TvGllTLKnknI vrenr TOP1_USTMA : 444- 465: fslra GneKgedEte--TyGvcSLRcehA qikmp TOP1_USTMA : 444- 465: fslra GneKg--EdeteTyGvcSLRcehA qikmp TOP1_VACCV : 132- 153: ffirf GkmKylkEne--TvGllTLKnkhI eispd TOP1_VARV : 132- 153: ffirf GkmKylkEne--TvGllTLKnkhI eispd TOP1_XENLA : 546- 568: lalra GneKeegEtad-TvGccSLRvehI nlfqe TOP1_YEAST : 422- 443: falra GgeKsedEad--TvGccSLRyehV tlkpp TOP1_YEAST : 422- 443: falra GgeKs--EdeadTvGccSLRyehV tlkpp H 8: 30.3991 12( 12) F-[LPV]-G-x-D-S-x(4)-[ENQ]-x-[FLV]-x-[GIV]-x(3)-[DV] Occurences: 12(12) TOP1_ARATH : 675- 693: kikfd FLGkDSiqyvNtVeVeplV ykaig TOP1_CRIGR : 531- 549: vvefd FPGkDSiryyNkVpVekrV fknlq TOP1_DROME : 751- 769: vvvfd FPGkDSiryyNeVeVekrV fknle TOP1_HUMAN : 529- 547: vvefd FLGkDSiryyNkVpVekrV fknlq TOP1_MOUSE : 531- 549: vvefd FPGkDSiryyNkVpVekrV fknlq TOP1_SCHPO : 500- 518: tvvfd FLGkDSiryyNeVeVdpqV fknlk TOP1_SFVKA : 59- 77: lsrli FVGlDSkgrrQyFyGkmhV qrrns TOP1_USTMA : 477- 495: tihle FLGkDSmkfeEdLkItnpD vfkni TOP1_VACCV : 59- 77: ltrli FVGsDSkgrrQyFyGkmhV qnrna TOP1_VARV : 59- 77: ltrli FVGsDSkgrrQyFyGkmhV qnrna TOP1_XENLA : 585- 603: vvefd FPGkDSiryyNkVpVekrV fknlq TOP1_YEAST : 455- 473: tvifd FLGkDSirfyQeVeVdkqV fknlt I 9: 30.0606 12( 12) F-[LPV]-G-K-D-x-[IMV]-x-[FHY]-x(3)-[LV]-x(2)-[DEST] Occurences: 12(12) TOP1_ARATH : 675- 690: kikfd FLGKDsIqYvntVevE plvyk TOP1_CRIGR : 531- 546: vvefd FPGKDsIrYynkVpvE krvfk TOP1_DROME : 751- 766: vvvfd FPGKDsIrYyneVevE krvfk TOP1_HUMAN : 529- 544: vvefd FLGKDsIrYynkVpvE krvfk TOP1_MOUSE : 531- 546: vvefd FPGKDsIrYynkVpvE krvfk TOP1_SCHPO : 500- 515: tvvfd FLGKDsIrYyneVevD pqvfk TOP1_SFVKA : 163- 178: kilih FVGKDkIiHnftVhsS nrlyk TOP1_USTMA : 477- 492: tihle FLGKDsMkFeedLkiT npdvf TOP1_VACCV : 164- 179: eivik FVGKDkVsHefvVhkS nrlyk TOP1_VARV : 164- 179: kivik FVGKDkVsHefvVhkS nrlyk TOP1_XENLA : 585- 600: vvefd FPGKDsIrYynkVpvE krvfk TOP1_YEAST : 455- 470: tvifd FLGKDsIrFyqeVevD kqvfk J 10: 28.3906 12( 12) R-[AT]-Y-x-A-x(1,2)-T-[FILMV]-x-[DEGQS]-x-[LV]-x(3)-[ENPST] Occurences: 12(12) TOP1_ARATH : 736- 752: takvf RTYnAsiTLdEmLsqeT kdgdv TOP1_CRIGR : 592- 608: takvf RTYnAsiTLqQqLkelT apden TOP1_DROME : 812- 828: takvf RTYnAskTLqSqLdllT dpsat TOP1_HUMAN : 590- 606: takvf RTYnAsiTLqQqLkelT apden TOP1_MOUSE : 592- 608: takvf RTYnAsiTLqQqLkelT apden TOP1_SCHPO : 562- 578: sakvf RTYnAsyTMaEeLkkmP knltl TOP1_SFVKA : 271- 286: psisk RAYiAn-TVlEyLthdS elint TOP1_USTMA : 561- 577: sakvf RTYnAsvTFqGlLeqtE ewlks TOP1_VACCV : 272- 287: psisk RAYmAt-TIlEmVkdkN fldvv TOP1_VARV : 272- 287: psisk RAYmAt-TIlEmVkdkN fldvv TOP1_XENLA : 646- 662: takvf RTYnAsiTLqQqLdelT nsddn TOP1_YEAST : 517- 533: takvf RTYnAskTMqDqLdliP nkgsv K 11: 28.1656 12( 12) G-x(3)-K-[GV]-x-R-[QT]-Y-x(2)-[GS]-x(4)-[DEGQS] Occurences: 12(12) TOP1_ARATH : 729- 746: kelvp GltaKVfRTYnaSitldE mlsqe TOP1_CRIGR : 585- 602: qdlme GltaKVfRTYnaSitlqQ qlkel TOP1_DROME : 805- 822: kelme GltaKVfRTYnaSktlqS qldll TOP1_HUMAN : 583- 600: qdlme GltaKVfRTYnaSitlqQ qlkel TOP1_MOUSE : 585- 602: qdlme GltaKVfRTYnaSitlqQ qlkel TOP1_SCHPO : 555- 572: tslmd GlsaKVfRTYnaSytmaE elkkm TOP1_SFVKA : 61- 78: rlifv GldsKGrRQYfyGkmhvQ rrnsa TOP1_USTMA : 554- 571: skymk GlsaKVfRTYnaSvtfqG lleqt TOP1_VACCV : 61- 78: rlifv GsdsKGrRQYfyGkmhvQ nrnak TOP1_VARV : 61- 78: rlifv GsdsKGrRQYfyGkmhvQ nrnak TOP1_XENLA : 639- 656: qdlme GltaKVfRTYnaSitlqQ qldel TOP1_YEAST : 510- 527: qnymp GltaKVfRTYnaSktmqD qldli L 12: 27.6656 12( 12) G-x(2,3)-K-[GV]-x-R-[QT]-Y-x(2)-[GS]-x(4)-[DEGQS] Occurences: 12(12) TOP1_ARATH : 729- 746: kelvp GltaKVfRTYnaSitldE mlsqe TOP1_CRIGR : 585- 602: qdlme GltaKVfRTYnaSitlqQ qlkel TOP1_DROME : 805- 822: kelme GltaKVfRTYnaSktlqS qldll TOP1_HUMAN : 583- 600: qdlme GltaKVfRTYnaSitlqQ qlkel TOP1_MOUSE : 585- 602: qdlme GltaKVfRTYnaSitlqQ qlkel TOP1_SCHPO : 555- 572: tslmd GlsaKVfRTYnaSytmaE elkkm TOP1_SFVKA : 61- 78: rlifv GldsKGrRQYfyGkmhvQ rrnsa TOP1_USTMA : 554- 571: skymk GlsaKVfRTYnaSvtfqG lleqt TOP1_VACCV : 61- 78: rlifv GsdsKGrRQYfyGkmhvQ nrnak TOP1_VARV : 61- 78: rlifv GsdsKGrRQYfyGkmhvQ nrnak TOP1_XENLA : 639- 656: qdlme GltaKVfRTYnaSitlqQ qldel TOP1_YEAST : 510- 527: qnymp GltaKVfRTYnaSktmqD qldli M 13: 26.8456 12( 12) L-x(3,4)-V-x(2)-T-x(0,2)-Y-N-x(3)-[NT]-[FLMV]-x-[DEGQS] Occurences: 12(12) TOP1_ARATH : 730- 746: elvpg Ltak-VfrT--YNasiTLdE mlsqe TOP1_CRIGR : 586- 602: dlmeg Ltak-VfrT--YNasiTLqQ qlkel TOP1_DROME : 806- 822: elmeg Ltak-VfrT--YNaskTLqS qldll TOP1_HUMAN : 584- 600: dlmeg Ltak-VfrT--YNasiTLqQ qlkel TOP1_MOUSE : 586- 602: dlmeg Ltak-VfrT--YNasiTLqQ qlkel TOP1_SCHPO : 556- 572: slmdg Lsak-VfrT--YNasyTMaE elkkm TOP1_SFVKA : 221- 240: irlkd LrtygVnyTflYNfwtNVkS lnpip TOP1_USTMA : 555- 571: kymkg Lsak-VfrT--YNasvTFqG lleqt TOP1_VACCV : 222- 241: irikd LrtygVnyTflYNfwtNVkS isplp TOP1_VARV : 222- 241: irikd LrtygVnyTflYNfwtNVkS isplp TOP1_XENLA : 640- 656: dlmeg Ltak-VfrT--YNasiTLqQ qldel TOP1_YEAST : 511- 527: nympg Ltak-VfrT--YNaskTMqD qldli N 14: 25.2260 12( 12) V-x(2)-T-x(0,2)-Y-N-x(2,3)-T-x(4)-[IL]-x(3)-[EPT] Occurences: 12(12) TOP1_ARATH : 734- 752: gltak VfrT--YNasiTldemLsqeT kdgdv TOP1_CRIGR : 590- 608: gltak VfrT--YNasiTlqqqLkelT apden TOP1_DROME : 810- 828: gltak VfrT--YNaskTlqsqLdllT dpsat TOP1_HUMAN : 588- 606: gltak VfrT--YNasiTlqqqLkelT apden TOP1_MOUSE : 590- 608: gltak VfrT--YNasiTlqqqLkelT apden TOP1_SCHPO : 560- 578: glsak VfrT--YNasyTmaeeLkkmP knltl TOP1_SFVKA : 226- 245: lrtyg VnyTflYNfw-TnvksLnpiP pikkm TOP1_USTMA : 559- 577: glsak VfrT--YNasvTfqglLeqtE ewlks TOP1_VACCV : 227- 246: lrtyg VnyTflYNfw-TnvksIsplP spkkl TOP1_VARV : 227- 246: lrtyg VnyTflYNfw-TnvksIsplP spkkl TOP1_XENLA : 644- 662: gltak VfrT--YNasiTlqqqLdelT nsddn TOP1_YEAST : 515- 533: gltak VfrT--YNaskTmqdqLdliP nkgsv O 15: 24.9954 12( 12) R-T-Y-x(0,2)-N-x(1,3)-T-[FLM]-x(3)-[FL] Occurences: 12(12) TOP1_ARATH : 736- 748: takvf RTY--NasiTLdemL sqetk TOP1_CRIGR : 592- 604: takvf RTY--NasiTLqqqL kelta TOP1_DROME : 812- 824: takvf RTY--NaskTLqsqL dlltd TOP1_HUMAN : 590- 602: takvf RTY--NasiTLqqqL kelta TOP1_MOUSE : 592- 604: takvf RTY--NasiTLqqqL kelta TOP1_SCHPO : 562- 574: sakvf RTY--NasyTMaeeL kkmpk TOP1_SFVKA : 222- 234: rlkdl RTYgvNy--TFlynF wtnvk TOP1_USTMA : 561- 573: sakvf RTY--NasvTFqglL eqtee TOP1_VACCV : 223- 235: rikdl RTYgvNy--TFlynF wtnvk TOP1_VARV : 223- 235: rikdl RTYgvNy--TFlynF wtnvk TOP1_XENLA : 646- 658: takvf RTY--NasiTLqqqL deltn TOP1_YEAST : 517- 529: takvf RTY--NaskTMqdqL dlipn P 16: 24.1811 12( 12) L-x(2,4)-F-x-T-x-[NV]-x-S-x-[NST]-x(4)-[ILP] Occurences: 12(12) TOP1_ARATH : 730- 748: elvpg LtakvFrTyNaSiTldemL sqetk TOP1_CRIGR : 586- 604: dlmeg LtakvFrTyNaSiTlqqqL kelta TOP1_DROME : 806- 824: elmeg LtakvFrTyNaSkTlqsqL dlltd TOP1_HUMAN : 584- 602: dlmeg LtakvFrTyNaSiTlqqqL kelta TOP1_MOUSE : 586- 604: dlmeg LtakvFrTyNaSiTlqqqL kelta TOP1_SCHPO : 556- 574: slmdg LsakvFrTyNaSyTmaeeL kkmpk TOP1_SFVKA : 231- 247: vnytf Lyn--FwTnVkSlNpippI kkmis TOP1_USTMA : 555- 573: kymkg LsakvFrTyNaSvTfqglL eqtee TOP1_VACCV : 232- 248: vnytf Lyn--FwTnVkSiSplpsP kklia TOP1_VARV : 232- 248: vnytf Lyn--FwTnVkSiSplpsP kklia TOP1_XENLA : 640- 658: dlmeg LtakvFrTyNaSiTlqqqL deltn TOP1_YEAST : 511- 529: nympg LtakvFrTyNaSkTmqdqL dlipn Q 17: 22.1934 12( 12) A-x(1,2)-V-x(2,3)-T-x-[NS]-[AI]-S Occurences: 12(12) TOP1_ARATH : 732- 741: vpglt Ak-Vfr-TyNAS itlde TOP1_CRIGR : 588- 597: meglt Ak-Vfr-TyNAS itlqq TOP1_DROME : 808- 817: meglt Ak-Vfr-TyNAS ktlqs TOP1_HUMAN : 586- 595: meglt Ak-Vfr-TyNAS itlqq TOP1_MOUSE : 588- 597: meglt Ak-Vfr-TyNAS itlqq TOP1_SCHPO : 558- 567: mdgls Ak-Vfr-TyNAS ytmae TOP1_SFVKA : 259- 269: sikqt AdiVgh-TpSIS krayi TOP1_USTMA : 557- 566: mkgls Ak-Vfr-TyNAS vtfqg TOP1_VACCV : 260- 270: tikqt AevVgh-TpSIS kraym TOP1_VACCV : 260- 270: tikqt Ae-VvghTpSIS kraym TOP1_VARV : 260- 270: tikqt AevVgh-TpSIS kraym TOP1_VARV : 260- 270: tikqt Ae-VvghTpSIS kraym TOP1_XENLA : 642- 651: meglt Ak-Vfr-TyNAS itlqq TOP1_YEAST : 513- 522: mpglt Ak-Vfr-TyNAS ktmqd R 18: 22.1934 12( 12) A-x(1,2)-V-x(1,2)-T-x-[NS]-[AI]-S Occurences: 12(12) TOP1_ARATH : 732- 741: vpglt Ak-VfrTyNAS itlde TOP1_CRIGR : 588- 597: meglt Ak-VfrTyNAS itlqq TOP1_DROME : 808- 817: meglt Ak-VfrTyNAS ktlqs TOP1_HUMAN : 586- 595: meglt Ak-VfrTyNAS itlqq TOP1_MOUSE : 588- 597: meglt Ak-VfrTyNAS itlqq TOP1_SCHPO : 558- 567: mdgls Ak-VfrTyNAS ytmae TOP1_SFVKA : 259- 269: sikqt AdiVghTpSIS krayi TOP1_USTMA : 557- 566: mkgls Ak-VfrTyNAS vtfqg TOP1_VACCV : 260- 270: tikqt AevVghTpSIS kraym TOP1_VARV : 260- 270: tikqt AevVghTpSIS kraym TOP1_XENLA : 642- 651: meglt Ak-VfrTyNAS itlqq TOP1_YEAST : 513- 522: mpglt Ak-VfrTyNAS ktmqd S 19: 20.9723 12( 12) F-x-T-x(0,1)-N-x(1,2)-S-x-[NST]-x(4)-[ILP] Occurences: 12(12) TOP1_ARATH : 735- 748: ltakv FrTyNa-SiTldemL sqetk TOP1_CRIGR : 591- 604: ltakv FrTyNa-SiTlqqqL kelta TOP1_DROME : 811- 824: ltakv FrTyNa-SkTlqsqL dlltd TOP1_HUMAN : 589- 602: ltakv FrTyNa-SiTlqqqL kelta TOP1_MOUSE : 591- 604: ltakv FrTyNa-SiTlqqqL kelta TOP1_SCHPO : 561- 574: lsakv FrTyNa-SyTmaeeL kkmpk TOP1_SFVKA : 234- 247: tflyn FwT-NvkSlNpippI kkmis TOP1_USTMA : 560- 573: lsakv FrTyNa-SvTfqglL eqtee TOP1_VACCV : 235- 248: tflyn FwT-NvkSiSplpsP kklia TOP1_VARV : 235- 248: tflyn FwT-NvkSiSplpsP kklia TOP1_XENLA : 645- 658: ltakv FrTyNa-SiTlqqqL deltn TOP1_YEAST : 516- 529: ltakv FrTyNa-SkTmqdqL dlipn T 20: 16.1802 13( 12) L-x-T-x-K-x(0,1)-N Occurences: 13(12) TOP1_ARATH : 714- 720: dlfde LdTsKlN ahlke TOP1_ARATH : 865- 871: lktva LgTsKiN yldpr TOP1_CRIGR : 718- 724: nkqia LgTsKlN yldpr TOP1_DROME : 923- 929: nktia LgTsKlN yldpr TOP1_HUMAN : 716- 722: nkqia LgTsKlN yldpr TOP1_MOUSE : 718- 724: nkqia LgTsKlN yldpr TOP1_SCHPO : 764- 770: nktta LgTsKiN yidpr TOP1_SFVKA : 144- 149: ndtvg LlTlK-N knivr TOP1_USTMA : 815- 821: tsdva LsTsKlN yidpr TOP1_VACCV : 145- 150: netvg LlTlK-N khiei TOP1_VARV : 145- 150: netvg LlTlK-N khiei TOP1_XENLA : 772- 778: nkqia LgTsKlN yldpr TOP1_YEAST : 720- 726: nsqvs LgTsKiN yidpr Number of patterns evaluated by Pratt:11548 Total running time: 17 seconds