------------------------------------------------------------ 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 10 sequences from file RAS_GTPASE_ACTIV_1 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 10 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 45 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 RAS_GTPASE_ACTIV_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: BUD2_YEAST 1104 GAP1_SCHPO 766 GTPA_BOVIN 1044 GTPA_HUMAN 1047 IQGA_HUMAN 1657 IRA1_YEAST 3092 IRA2_YEAST 3079 NF1_CHICK 270 NF1_HUMAN 2839 NF1_MOUSE 2841 Pratt run started at Thu Feb 6 20:57:07 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 16.1802 10( 10) L-x(3)-E-x(5)-L-x(3,4)-L 2: 15.6802 21( 10) L-x(3,4)-L-x(2)-L-x(1,2)-L 3: 15.6802 17( 10) L-x(2,3)-L-x(2,3)-L-x-S 4: 15.6802 28( 10) L-x(2,4)-L-x-T-L 5: 15.6802 13( 10) E-x(2)-L-x(1,2)-S-x(4,5)-L 6: 15.6802 17( 10) L-x(2)-L-x(0,1)-L-x(0,1)-N 7: 15.6802 11( 10) L-x(2)-L-x-N-x(0,2)-S 8: 15.6802 16( 10) L-x(2)-L-x(1,2)-N-x(2,3)-S 9: 15.6802 20( 10) L-x(2,3)-L-x-N-x(2,3)-S 10: 15.6802 19( 10) L-x(2,3)-L-x(0,1)-N-x(2)-S 11: 15.6802 16( 10) L-x(2,3)-L-x(4,5)-S-x(5)-L 12: 15.6802 17( 10) L-x(1,2)-L-L-x(0,1)-N 13: 15.6802 16( 10) L-x(1,2)-L-x(2)-L-x(4,5)-S 14: 15.6802 10( 10) E-x(5)-L-x(0,1)-K-x(0,1)-L 15: 15.6802 13( 10) L-x(4)-N-x(1,2)-S-x(1,2)-V 16: 15.6802 13( 10) L-x(3)-L-x(0,1)-S-x(1,2)-L 17: 15.6802 16( 10) E-x(2,4)-E-x-L-L 18: 15.6802 10( 10) S-x(5)-E-x(1,2)-L-x(0,1)-L 19: 15.6802 12( 10) L-x(3,4)-E-x(5)-L-x(3,4)-E 20: 15.6802 11( 10) S-x(4,5)-S-x(0,1)-L-x-K Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 20.9814 10( 10) L-x(3)-E-[DEN]-x(4)-L-x(3,4)-L-x(3)-[ADGS] B 2: 18.3912 10( 10) L-x(3)-E-x(5)-L-x(3,4)-L-x(3)-[ADGS] C 3: 17.8838 10( 10) L-x(3,4)-E-x(5)-L-x(3,4)-E-x(4)-[ADSV] D 4: 17.5673 11( 10) L-x(2,3)-L-x(4,5)-S-x(4)-[ADEST]-L E 5: 15.6802 21( 10) L-x(3,4)-L-x(2)-L-x(1,2)-L F 6: 15.6802 17( 10) L-x(2,3)-L-x(2,3)-L-x-S G 7: 15.6802 28( 10) L-x(2,4)-L-x-T-L H 8: 15.6802 13( 10) E-x(2)-L-x(1,2)-S-x(4,5)-L I 9: 15.6802 17( 10) L-x(2)-L-x(0,1)-L-x(0,1)-N J 10: 15.6802 11( 10) L-x(2)-L-x-N-x(0,2)-S K 11: 15.6802 16( 10) L-x(2)-L-x(1,2)-N-x(2,3)-S L 12: 15.6802 20( 10) L-x(2,3)-L-x-N-x(2,3)-S M 13: 15.6802 19( 10) L-x(2,3)-L-x(0,1)-N-x(2)-S N 14: 15.6802 17( 10) L-x(1,2)-L-L-x(0,1)-N O 15: 15.6802 16( 10) L-x(1,2)-L-x(2)-L-x(4,5)-S P 16: 15.6802 10( 10) E-x(5)-L-x(0,1)-K-x(0,1)-L Q 17: 15.6802 13( 10) L-x(4)-N-x(1,2)-S-x(1,2)-V R 18: 15.6802 13( 10) L-x(3)-L-x(0,1)-S-x(1,2)-L S 19: 15.6802 16( 10) E-x(2,4)-E-x-L-L T 20: 15.6802 10( 10) S-x(5)-E-x(1,2)-L-x(0,1)-L Best patterns with alignements: fitness hits(seqs) Pattern A 1: 20.9814 10( 10) L-x(3)-E-[DEN]-x(4)-L-x(3,4)-L-x(3)-[ADGS] Occurences: 10(10) BUD2_YEAST : 520- 539: difqs LsriEEwfhvLidkeLakiD gtvsr GAP1_SCHPO : 396- 414: sfqpm LkeyEEkvhnLlrk-LgnvG dffea GTPA_BOVIN : 832- 850: lspsk LeknEDvntnLahl-LnilS elvek GTPA_HUMAN : 835- 853: lspsk LeknEDvntnLthl-LnilS elvek IQGA_HUMAN : 530- 548: vdhvn LvvqEEheriLaig-LineA ldegd IRA1_YEAST : 1380- 1398: lnnpn LltrENsrdiLsie-LhplS fnllf IRA2_YEAST : 1372- 1390: lnypd LltrENsrdiLsve-LhplS fnllf NF1_CHICK : 14- 32: ctcsq LhfsEEtkqvLrls-LtefS lpkfy NF1_HUMAN : 2139- 2157: ctcsq LhfsEEtkqvLrls-LtefS lpkfy NF1_MOUSE : 2141- 2159: ctcsq LhfsEEtkqvLrls-LtefS lpkfy B 2: 18.3912 10( 10) L-x(3)-E-x(5)-L-x(3,4)-L-x(3)-[ADGS] Occurences: 10(10) BUD2_YEAST : 520- 539: difqs LsriEewfhvLidkeLakiD gtvsr GAP1_SCHPO : 396- 414: sfqpm LkeyEekvhnLlrk-LgnvG dffea GTPA_BOVIN : 832- 850: lspsk LeknEdvntnLahl-LnilS elvek GTPA_HUMAN : 835- 853: lspsk LeknEdvntnLthl-LnilS elvek IQGA_HUMAN : 530- 548: vdhvn LvvqEeheriLaig-LineA ldegd IRA1_YEAST : 1380- 1398: lnnpn LltrEnsrdiLsie-LhplS fnllf IRA2_YEAST : 1372- 1390: lnypd LltrEnsrdiLsve-LhplS fnllf NF1_CHICK : 14- 32: ctcsq LhfsEetkqvLrls-LtefS lpkfy NF1_HUMAN : 2139- 2157: ctcsq LhfsEetkqvLrls-LtefS lpkfy NF1_MOUSE : 2141- 2159: ctcsq LhfsEetkqvLrls-LtefS lpkfy C 3: 17.8838 10( 10) L-x(3,4)-E-x(5)-L-x(3,4)-E-x(4)-[ADSV] Occurences: 10(10) BUD2_YEAST : 520- 539: difqs Lsri-EewfhvLidk-ElakiD gtvsr GAP1_SCHPO : 574- 594: lstlr Lvdk-EnryepLtsevEkefiD ldaly GTPA_BOVIN : 490- 510: krwkn LyfilEgsdaqLiyf-EsekrA tkpkg GTPA_HUMAN : 493- 513: krwkn LyfilEgsdaqLiyf-EsekrA tkpkg IQGA_HUMAN : 1452- 1473: dsnlt LqekkEkiqtgLkkltElgtvD pknky IRA1_YEAST : 1408- 1428: fnnlg Lkid-ElmsidLskshEdssfV lleqi IRA2_YEAST : 1670- 1690: taktd Lgkl-EaadkfLrytiEhpqlS sfgaa NF1_CHICK : 74- 94: retfa Ltsl-EtvteaLleimEacmrD iptck NF1_HUMAN : 2199- 2219: retfa Ltsl-EtvteaLleimEacmrD iptck NF1_MOUSE : 2201- 2221: retfa Ltsl-EtvteaLleimEacmrD iptck D 4: 17.5673 11( 10) L-x(2,3)-L-x(4,5)-S-x(4)-[ADEST]-L Occurences: 11(10) BUD2_YEAST : 586- 602: ylska LsaiLkeiieSnkscEL dparv GAP1_SCHPO : 729- 745: evcic LddvLqrryaSnpvvDL gfltf GTPA_BOVIN : 754- 770: lasil LkifLhekleSlllcTL ndrei GTPA_HUMAN : 757- 773: lasil LrifLhekleSlllcTL ndrei IQGA_HUMAN : 78- 92: rngvy Lak-Lgnff-SpkvvSL kkiyd IRA1_YEAST : 908- 922: diqsi Lpt-Lsnrs-SasdlSL snilt IRA1_YEAST : 1186- 1201: terlt Lpl-LvgavgSgifiSL ycsrg IRA2_YEAST : 2175- 2190: itgqg Lkv-LqdirvSlhdiTL ydekr NF1_CHICK : 176- 190: ialtk Lqp-Llnkd-SpmhkAL fwvam NF1_HUMAN : 2301- 2315: ialtk Lqp-Llnkd-SplhkAL fwvav NF1_MOUSE : 2303- 2317: ialtk Lqp-Llnkd-SplhkAL fwvav E 5: 15.6802 21( 10) L-x(3,4)-L-x(2)-L-x(1,2)-L Occurences: 21(10) BUD2_YEAST : 711- 722: rrnlt LiskvLlnLstL tqfan GAP1_SCHPO : 565- 574: iraie Llde-LstLr-L vdken GTPA_BOVIN : 758- 767: llkif Lhek-LesLl-L ctlnd GTPA_BOVIN : 842- 852: dvntn Lahl-LniLseL vekif GTPA_HUMAN : 761- 770: llrif Lhek-LesLl-L ctlnd GTPA_HUMAN : 845- 855: dvntn Lthl-LniLseL vekif IQGA_HUMAN : 155- 164: yciha Lsly-LfkLg-L apqiq IRA1_YEAST : 270- 280: ltdkn Llay-LdiLqhL ssymk IRA1_YEAST : 632- 641: psirh Lthg-LkkLt-L qqgrk IRA1_YEAST : 1133- 1143: tyavt LfassLfdLk-L enakr IRA1_YEAST : 2898- 2908: kssdy LcylfLlhLv-L speql IRA1_YEAST : 2908- 2918: llhlv LspeqLstLl-L evgfe IRA2_YEAST : 2319- 2330: ertil LchllLvsLigL fdesk NF1_CHICK : 212- 223: sagta LleqnLhtLdsL rvfnd NF1_CHICK : 213- 223: agtal Leqn-LhtLdsL rvfnd NF1_HUMAN : 79- 90: aaekn LylsqLiiLdtL ekcla NF1_HUMAN : 2337- 2348: sagta LleqnLhtLdsL rifnd NF1_HUMAN : 2338- 2348: agtal Leqn-LhtLdsL rifnd NF1_MOUSE : 79- 90: aaekn LylsqLiiLdtL ekcla NF1_MOUSE : 2339- 2350: sagta LleqnLhtLdsL rifnd NF1_MOUSE : 2340- 2350: agtal Leqn-LhtLdsL rifnd F 6: 15.6802 17( 10) L-x(2,3)-L-x(2,3)-L-x-S Occurences: 17(10) BUD2_YEAST : 260- 268: enslf Lge-Lpl-LrS qlgle GAP1_SCHPO : 121- 131: drklq LygaLfflLqS epayi GAP1_SCHPO : 519- 529: vdakt LfiqLlrlLpS ghpat GTPA_BOVIN : 754- 764: lasil LkifLhekLeS lllct GTPA_HUMAN : 757- 767: lasil LrifLhekLeS lllct IQGA_HUMAN : 247- 256: npnam Lvn-LeepLaS tyqdi IRA1_YEAST : 274- 282: nllay Ldi-Lqh-LsS ymkrt IRA1_YEAST : 581- 589: ailrf Lvv-Ltl-LdS evyde IRA1_YEAST : 979- 988: lqqsd LpspLsv-LsS sagfs IRA2_YEAST : 654- 662: hitqg Lkk-Lts-LpS stkkt NF1_CHICK : 213- 222: agtal LeqnLht-LdS lrvfn NF1_HUMAN : 549- 557: eamea Llv-Lhq-LdS idlwn NF1_HUMAN : 1855- 1864: vpgtl LniaLln-LgS sdpsl NF1_HUMAN : 2338- 2347: agtal LeqnLht-LdS lrifn NF1_MOUSE : 549- 557: eamea Llv-Lhq-LdS idlwn NF1_MOUSE : 1857- 1866: vpgtl LniaLln-LgS sdpsl NF1_MOUSE : 2340- 2349: agtal LeqnLht-LdS lrifn G 7: 15.6802 28( 10) L-x(2,4)-L-x-T-L Occurences: 28(10) BUD2_YEAST : 716- 722: liskv Lln--LsTL tqfan GAP1_SCHPO : 565- 572: iraie Llde-LsTL rlvdk GAP1_SCHPO : 566- 572: raiel Lde--LsTL rlvdk GTPA_BOVIN : 762- 770: flhek LesllLcTL ndrei GTPA_HUMAN : 765- 773: flhek LesllLcTL ndrei IQGA_HUMAN : 428- 436: pfaad LyqkeLaTL qrqsp IRA1_YEAST : 2908- 2916: llhlv LspeqLsTL llevg IRA2_YEAST : 592- 598: phtsv Lkf--LtTL tmfdi NF1_CHICK : 212- 220: sagta LleqnLhTL dslrv NF1_CHICK : 213- 220: agtal Leqn-LhTL dslrv NF1_HUMAN : 84- 90: lylsq Lii--LdTL ekcla NF1_HUMAN : 1239- 1246: sqwde Larv-LvTL fdsrh NF1_HUMAN : 1623- 1631: ingdl LiyhvLlTL kpyya NF1_HUMAN : 2337- 2345: sagta LleqnLhTL dslri NF1_HUMAN : 2338- 2345: agtal Leqn-LhTL dslri NF1_HUMAN : 2413- 2419: rtvri Lht--LlTL vnkhr NF1_HUMAN : 2618- 2626: pkiqa LlltvLaTL vkytt NF1_HUMAN : 2619- 2626: kiqal Lltv-LaTL vkytt NF1_HUMAN : 2620- 2626: iqall Ltv--LaTL vkytt NF1_MOUSE : 84- 90: lylsq Lii--LdTL ekcla NF1_MOUSE : 1241- 1248: sqwde Larv-LvTL fdsrh NF1_MOUSE : 1625- 1633: ingdl LiyhvLlTL kpyya NF1_MOUSE : 2339- 2347: sagta LleqnLhTL dslri NF1_MOUSE : 2340- 2347: agtal Leqn-LhTL dslri NF1_MOUSE : 2415- 2421: rtvri Lht--LlTL vnkhr NF1_MOUSE : 2620- 2628: pkiqa LlltvLaTL vkytt NF1_MOUSE : 2621- 2628: kiqal Lltv-LaTL vkytt NF1_MOUSE : 2622- 2628: iqall Ltv--LaTL vkytt H 8: 15.6802 13( 10) E-x(2)-L-x(1,2)-S-x(4,5)-L Occurences: 13(10) BUD2_YEAST : 834- 845: gelie EegLl-SgsslnL svdkk GAP1_SCHPO : 168- 180: qyesr EehLllSlfqmvL ttefe GAP1_SCHPO : 169- 180: yesre EhlLl-SlfqmvL ttefe GTPA_BOVIN : 685- 695: ghatd EwfLl-Sship-L kgiep GTPA_HUMAN : 688- 698: ghatd EwfLl-Sship-L kgiep IQGA_HUMAN : 251- 262: mlvnl EepLa-StyqdiL yqakq IRA1_YEAST : 1496- 1507: afehs EknLgiSnhfh-L knkwl IRA2_YEAST : 2264- 2275: vtfqd ErrLifSspky-L eivkm NF1_CHICK : 202- 212: vleld EvnLy-Sagta-L leqnl NF1_CHICK : 202- 213: vleld EvnLy-SagtalL eqnlh NF1_HUMAN : 76- 87: fgeaa EknLylSqlii-L dtlek NF1_HUMAN : 2327- 2337: vlqld EvnLy-Sagta-L leqnl NF1_HUMAN : 2327- 2338: vlqld EvnLy-SagtalL eqnlh NF1_MOUSE : 76- 87: fgeaa EknLylSqlii-L dtlek NF1_MOUSE : 2329- 2339: vlqld EvnLy-Sagta-L leqnl NF1_MOUSE : 2329- 2340: vlqld EvnLy-SagtalL eqnlh I 9: 15.6802 17( 10) L-x(2)-L-x(0,1)-L-x(0,1)-N Occurences: 17(10) BUD2_YEAST : 477- 483: tnfvk LekL-LmN anlsm GAP1_SCHPO : 484- 491: qednc LvtLpLyN rwdss GTPA_BOVIN : 842- 847: dvntn LahL-L-N ilsel GTPA_HUMAN : 845- 850: dvntn LthL-L-N ilsel IQGA_HUMAN : 1646- 1651: vnvnl LifL-L-N kkfyg IRA1_YEAST : 1138- 1145: lfass LfdLkLeN akrem IRA1_YEAST : 2601- 2607: eirvs LyeL-LmN vchsl IRA2_YEAST : 2589- 2595: elrss LhqL-LmN vchsl NF1_CHICK : 176- 181: ialtk LqpL-L-N kdspm NF1_HUMAN : 353- 359: smvvd LknL-LfN pskpf NF1_HUMAN : 1253- 1259: dsrhl LyqL-LwN mfske NF1_HUMAN : 1507- 1513: gnvla LhrL-LwN nqeki NF1_HUMAN : 2301- 2306: ialtk LqpL-L-N kdspl NF1_MOUSE : 353- 359: smvvd LknL-LfN pskpf NF1_MOUSE : 1255- 1261: dsrhl LyqL-LwN mfske NF1_MOUSE : 1509- 1515: gnvla LhrL-LwN nqeki NF1_MOUSE : 2303- 2308: ialtk LqpL-L-N kdspl J 10: 15.6802 11( 10) L-x(2)-L-x-N-x(0,2)-S Occurences: 11(10) BUD2_YEAST : 395- 401: fqfne LlrLtN--S yleik GAP1_SCHPO : 20- 28: pqtnr LslLrNreS tsvly GTPA_BOVIN : 842- 850: dvntn LahLlNilS elvek GTPA_HUMAN : 845- 853: dvntn LthLlNilS elvek IQGA_HUMAN : 78- 86: rngvy LakLgNffS pkvvs IRA1_YEAST : 170- 177: fntrt LkvLqNm-S hhlsg IRA1_YEAST : 908- 915: diqsi LptLsNr-S sasdl IRA1_YEAST : 908- 916: diqsi LptLsNrsS asdls IRA2_YEAST : 196- 204: fntrt LqiLqNmiS hvhgn NF1_CHICK : 176- 184: ialtk LqpLlNkdS pmhka NF1_HUMAN : 2301- 2309: ialtk LqpLlNkdS plhka NF1_MOUSE : 2303- 2311: ialtk LqpLlNkdS plhka K 11: 15.6802 16( 10) L-x(2)-L-x(1,2)-N-x(2,3)-S Occurences: 16(10) BUD2_YEAST : 477- 487: tnfvk LekLlmNanlS mvsnl GAP1_SCHPO : 20- 28: pqtnr LslLr-Nre-S tsvly GAP1_SCHPO : 191- 201: atsdv LslLraNtpvS rmltt GTPA_BOVIN : 842- 850: dvntn LahLl-Nil-S elvek GTPA_HUMAN : 845- 853: dvntn LthLl-Nil-S elvek IQGA_HUMAN : 78- 86: rngvy LakLg-Nff-S pkvvs IRA1_YEAST : 908- 916: diqsi LptLs-Nrs-S asdls IRA1_YEAST : 2601- 2611: eirvs LyeLlmNvchS ltnne IRA2_YEAST : 196- 204: fntrt LqiLq-Nmi-S hvhgn IRA2_YEAST : 675- 685: fvkml LrnLngNqavS dvall IRA2_YEAST : 2589- 2599: elrss LhqLlmNvchS lains NF1_CHICK : 176- 184: ialtk LqpLl-Nkd-S pmhka NF1_HUMAN : 1253- 1262: dsrhl LyqLlwNmf-S kevel NF1_HUMAN : 2301- 2309: ialtk LqpLl-Nkd-S plhka NF1_MOUSE : 1255- 1264: dsrhl LyqLlwNmf-S kevel NF1_MOUSE : 2303- 2311: ialtk LqpLl-Nkd-S plhka L 12: 15.6802 20( 10) L-x(2,3)-L-x-N-x(2,3)-S Occurences: 20(10) BUD2_YEAST : 477- 487: tnfvk LeklLmNanlS mvsnl GAP1_SCHPO : 20- 28: pqtnr Lsl-LrNre-S tsvly GTPA_BOVIN : 842- 850: dvntn Lah-LlNil-S elvek GTPA_HUMAN : 845- 853: dvntn Lth-LlNil-S elvek IQGA_HUMAN : 78- 86: rngvy Lak-LgNff-S pkvvs IRA1_YEAST : 908- 916: diqsi Lpt-LsNrs-S asdls IRA1_YEAST : 2601- 2611: eirvs LyelLmNvchS ltnne IRA2_YEAST : 196- 204: fntrt Lqi-LqNmi-S hvhgn IRA2_YEAST : 2589- 2599: elrss LhqlLmNvchS lains NF1_CHICK : 176- 184: ialtk Lqp-LlNkd-S pmhka NF1_HUMAN : 933- 942: alypm LfnkLkNti-S kffds NF1_HUMAN : 1109- 1118: lkyft LfmnLlNdc-S evede NF1_HUMAN : 1253- 1262: dsrhl LyqlLwNmf-S kevel NF1_HUMAN : 1855- 1864: vpgtl LniaLlNlg-S sdpsl NF1_HUMAN : 1855- 1865: vpgtl LniaLlNlgsS dpslr NF1_HUMAN : 2301- 2309: ialtk Lqp-LlNkd-S plhka NF1_MOUSE : 935- 944: alypm LfnkLkNti-S kffds NF1_MOUSE : 1111- 1120: lkyft LfmnLlNdc-S evede NF1_MOUSE : 1255- 1264: dsrhl LyqlLwNmf-S kevel NF1_MOUSE : 1857- 1866: vpgtl LniaLlNlg-S sdpsl NF1_MOUSE : 1857- 1867: vpgtl LniaLlNlgsS dpslr NF1_MOUSE : 2303- 2311: ialtk Lqp-LlNkd-S plhka M 13: 15.6802 19( 10) L-x(2,3)-L-x(0,1)-N-x(2)-S Occurences: 19(10) BUD2_YEAST : 668- 676: ciddt LqiiL-NgiS gllfl GAP1_SCHPO : 20- 28: pqtnr Lsl-LrNreS tsvly GTPA_BOVIN : 842- 850: dvntn LahlL-NilS elvek GTPA_BOVIN : 842- 850: dvntn Lah-LlNilS elvek GTPA_HUMAN : 845- 853: dvntn LthlL-NilS elvek GTPA_HUMAN : 845- 853: dvntn Lth-LlNilS elvek IQGA_HUMAN : 78- 86: rngvy Lak-LgNffS pkvvs IRA1_YEAST : 908- 916: diqsi Lpt-LsNrsS asdls IRA2_YEAST : 196- 204: fntrt Lqi-LqNmiS hvhgn IRA2_YEAST : 605- 613: mfdid LfneL-NatS fkyip NF1_CHICK : 176- 184: ialtk LqplL-NkdS pmhka NF1_CHICK : 176- 184: ialtk Lqp-LlNkdS pmhka NF1_HUMAN : 933- 942: alypm LfnkLkNtiS kffds NF1_HUMAN : 1109- 1118: lkyft LfmnLlNdcS evede NF1_HUMAN : 1253- 1262: dsrhl LyqlLwNmfS kevel NF1_HUMAN : 1855- 1864: vpgtl LniaLlNlgS sdpsl NF1_HUMAN : 2301- 2309: ialtk LqplL-NkdS plhka NF1_HUMAN : 2301- 2309: ialtk Lqp-LlNkdS plhka NF1_MOUSE : 935- 944: alypm LfnkLkNtiS kffds NF1_MOUSE : 1111- 1120: lkyft LfmnLlNdcS evede NF1_MOUSE : 1255- 1264: dsrhl LyqlLwNmfS kevel NF1_MOUSE : 1857- 1866: vpgtl LniaLlNlgS sdpsl NF1_MOUSE : 2303- 2311: ialtk LqplL-NkdS plhka NF1_MOUSE : 2303- 2311: ialtk Lqp-LlNkdS plhka N 14: 15.6802 17( 10) L-x(1,2)-L-L-x(0,1)-N Occurences: 17(10) BUD2_YEAST : 477- 483: tnfvk LekLLmN anlsm BUD2_YEAST : 980- 984: gkeiv Lk-LL-N kptne GAP1_SCHPO : 20- 25: pqtnr Ls-LLrN rests GTPA_BOVIN : 842- 847: dvntn LahLL-N ilsel GTPA_HUMAN : 845- 850: dvntn LthLL-N ilsel IQGA_HUMAN : 1646- 1651: vnvnl LifLL-N kkfyg IRA1_YEAST : 2601- 2607: eirvs LyeLLmN vchsl IRA2_YEAST : 2589- 2595: elrss LhqLLmN vchsl NF1_CHICK : 176- 181: ialtk LqpLL-N kdspm NF1_HUMAN : 353- 359: smvvd LknLLfN pskpf NF1_HUMAN : 1253- 1259: dsrhl LyqLLwN mfske NF1_HUMAN : 1507- 1513: gnvla LhrLLwN nqeki NF1_HUMAN : 2301- 2306: ialtk LqpLL-N kdspl NF1_MOUSE : 353- 359: smvvd LknLLfN pskpf NF1_MOUSE : 1255- 1261: dsrhl LyqLLwN mfske NF1_MOUSE : 1509- 1515: gnvla LhrLLwN nqeki NF1_MOUSE : 2303- 2308: ialtk LqpLL-N kdspl O 15: 15.6802 16( 10) L-x(1,2)-L-x(2)-L-x(4,5)-S Occurences: 16(10) BUD2_YEAST : 258- 268: qsens Lf-LgeLpllr-S qlgle GAP1_SCHPO : 450- 461: theii LenLdnLydpd-S hvhli GAP1_SCHPO : 465- 476: dshvh Li-LqeLgepckS vpqed GTPA_BOVIN : 765- 776: ekles Ll-LctLndreiS medea GTPA_HUMAN : 768- 779: ekles Ll-LctLndreiS medea IQGA_HUMAN : 333- 343: lqspa Lg-LrgLqqqn-S dwylk IRA1_YEAST : 271- 282: tdknl LayLdiLqhls-S ymkrt IRA1_YEAST : 578- 589: shtai LrfLvvLtlld-S evyde IRA1_YEAST : 1184- 1195: itter Lt-LplLvgavgS gifis IRA1_YEAST : 2898- 2909: kssdy LcyLflLhlvl-S peqls IRA2_YEAST : 1400- 1411: fnnlr Lk-LkeLacsdlS ipene NF1_CHICK : 173- 184: atvia LtkLqpLlnkd-S pmhka NF1_HUMAN : 1922- 1932: aneph Lt-LefLeeci-S gfsks NF1_HUMAN : 2298- 2309: atvia LtkLqpLlnkd-S plhka NF1_MOUSE : 1924- 1934: aneph Lt-LefLeeci-S gfsks NF1_MOUSE : 2300- 2311: stvia LtkLqpLlnkd-S plhka P 16: 15.6802 10( 10) E-x(5)-L-x(0,1)-K-x(0,1)-L Occurences: 10(10) BUD2_YEAST : 974- 982: yeeik EgkeivL-K-L lnkpt BUD2_YEAST : 974- 983: yeeik EgkeivL-KlL nkptn GAP1_SCHPO : 401- 410: lkeye EkvhnlLrK-L gnvgd GTPA_BOVIN : 722- 732: eeeys EfkeliLqKeL hvvya GTPA_HUMAN : 725- 735: eeeys EfkeliLqKeL hvvya IQGA_HUMAN : 1457- 1466: lqekk EkiqtgLkK-L telgt IQGA_HUMAN : 1457- 1466: lqekk EkiqtgL-KkL telgt IRA1_YEAST : 799- 808: hedia EktssvL-KrL fciia IRA2_YEAST : 1518- 1528: vsiar EydfenLsKpL kemdl NF1_CHICK : 167- 176: sqvli EatviaLtK-L qplln NF1_HUMAN : 2292- 2301: sqvli EatviaLtK-L qplln NF1_MOUSE : 2294- 2303: sqvli EstviaLtK-L qplln Q 17: 15.6802 13( 10) L-x(4)-N-x(1,2)-S-x(1,2)-V Occurences: 13(10) BUD2_YEAST : 480- 489: vklek LlmnaNl-Sm-V snliy GAP1_SCHPO : 20- 31: pqtnr LsllrNreStsV lytid GTPA_BOVIN : 842- 853: dvntn LahllNilSelV ekifm GTPA_HUMAN : 845- 856: dvntn LthllNilSelV ekifm IQGA_HUMAN : 78- 89: rngvy LaklgNffSpkV vslkk IQGA_HUMAN : 676- 686: akkkk LavgdNn-SkwV khwvk IRA1_YEAST : 2857- 2868: fphii LgfiaNglSipV vkgaa IRA2_YEAST : 196- 206: fntrt LqilqNmiSh-V hgnil IRA2_YEAST : 1410- 1420: lacsd LsipeNesSy-V lleqi IRA2_YEAST : 1410- 1420: lacsd LsipeNe-SsyV lleqi IRA2_YEAST : 2823- 2833: fahtf LskieNl-SgiV wnedn NF1_CHICK : 154- 164: glesc LkgpdNynSq-V lieat NF1_HUMAN : 2086- 2096: larym LmlsfNn-SldV aahlp NF1_MOUSE : 2088- 2098: larym LmlsfNn-SldV aahlp R 18: 15.6802 13( 10) L-x(3)-L-x(0,1)-S-x(1,2)-L Occurences: 13(10) BUD2_YEAST : 582- 590: vgney LskaL-SaiL keiie GAP1_SCHPO : 565- 572: iraie LldeL-St-L rlvdk GTPA_BOVIN : 758- 766: llkif LhekLeSl-L lctln GTPA_BOVIN : 758- 767: llkif LhekLeSllL ctlnd GTPA_BOVIN : 845- 852: tnlah LlniL-Se-L vekif GTPA_HUMAN : 761- 769: llrif LhekLeSl-L lctln GTPA_HUMAN : 761- 770: llrif LhekLeSllL ctlnd GTPA_HUMAN : 848- 855: tnlth LlniL-Se-L vekif IQGA_HUMAN : 324- 333: gdala LfraLqSpaL glrgl IRA1_YEAST : 979- 986: lqqsd LpspL-Sv-L sssag IRA2_YEAST : 174- 182: skpqa LipeLaSk-L lesca IRA2_YEAST : 174- 183: skpqa LipeLaSklL escak IRA2_YEAST : 314- 322: kkyle LiknL-SvtL rktiy NF1_CHICK : 146- 154: qiiri LskgLeSc-L kgpdn NF1_HUMAN : 2271- 2279: qiiri LskaLeSc-L kgpdt NF1_MOUSE : 2273- 2281: qiiri LskaLeSc-L kgpdt S 19: 15.6802 16( 10) E-x(2,4)-E-x-L-L Occurences: 16(10) BUD2_YEAST : 830- 838: nggkg ElieeEgLL sgssl GAP1_SCHPO : 165- 172: ygnqy Esre-EhLL lslfq GTPA_BOVIN : 760- 766: kiflh Ekl--EsLL lctln GTPA_HUMAN : 763- 769: riflh Ekl--EsLL lctln IQGA_HUMAN : 283- 291: enser ErdvyEeLL tqaei IRA1_YEAST : 1144- 1152: fdlkl EnakrEmLL diivk IRA2_YEAST : 81- 87: vegtl Eli--EsLL qghei NF1_CHICK : 78- 85: altsl Etvt-EaLL eimea NF1_HUMAN : 544- 550: peiaq Eam--EaLL vlhql NF1_HUMAN : 2203- 2210: altsl Etvt-EaLL eimea NF1_HUMAN : 2748- 2756: lpgid EetseEsLL tptsp NF1_HUMAN : 2749- 2756: pgide Etse-EsLL tptsp NF1_MOUSE : 544- 550: pevaq Eam--EaLL vlhql NF1_MOUSE : 2205- 2212: altsl Etvt-EaLL eimea NF1_MOUSE : 2750- 2758: lpgid EetseEsLL tptsp NF1_MOUSE : 2751- 2758: pgide Etse-EsLL tptsp T 20: 15.6802 10( 10) S-x(5)-E-x(1,2)-L-x(0,1)-L Occurences: 10(10) BUD2_YEAST : 249- 260: irild SsvlqsEnsLfL gelpl GAP1_SCHPO : 675- 685: tvkls SqqlkkEsvL-L nctip GTPA_BOVIN : 257- 266: yyshv ScllkgEk-L-L ypvap GTPA_HUMAN : 260- 269: yyshv ScllkgEk-L-L ypvap IQGA_HUMAN : 879- 889: hlldq SdqdfqEe-LdL mkmre IRA1_YEAST : 2564- 2574: ilski SvsiffEspL-L sqmyl IRA2_YEAST : 2552- 2562: ilvki SihvffEtsL-L vqmyl NF1_CHICK : 76- 85: tfalt SletvtEa-L-L eimea NF1_HUMAN : 2201- 2210: tfalt SletvtEa-L-L eimea NF1_MOUSE : 2203- 2212: tfalt SletvtEa-L-L eimea Number of patterns evaluated by Pratt:24700 Total running time: 71 seconds