------------------------------------------------------------ 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 14 sequences from file RIBOSOMAL_L29 PATTERN CONSERVATION: CM: min Nr of Seqs to Match 14 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 RIBOSOMAL_L29.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: RL29_ACYKS 63 RL29_BACST 66 RL29_BACSU 66 RL29_CHLTR 72 RL29_ECOLI 63 RL29_HAEIN 63 RL29_HALHA 71 RL29_HALMA 70 RL29_MYCCA 138 RL29_THEMA 66 RL35_CAEEL 123 RL35_HUMAN 122 RL35_RAT 122 RL35_YEAST 120 Pratt run started at Thu Feb 6 21:05:54 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 12.0102 14( 14) L-x(2,3)-E-L 2: 11.0102 16( 14) A-x(4,5)-L-x(2,4)-E 3: 11.0102 21( 14) R-x(2,3)-A-x(1,3)-K 4: 10.5102 20( 14) R-x(3,5)-A-x(3,5)-L 5: 10.5102 24( 14) L-x(1,3)-E-x(1,3)-L 6: 10.5102 20( 14) L-x(2,4)-L-x(0,2)-E 7: 8.3401 26( 14) K-A 8: 8.3401 21( 14) L-x(2)-E 9: 8.3401 20( 14) K-T 10: 8.3401 20( 14) K-x(4)-E 11: 8.3401 23( 14) R-x-K 12: 8.3401 24( 14) R-x(3)-A 13: 8.3401 27( 14) L-x(2)-L 14: 8.3401 38( 14) E-L 15: 7.8401 41( 14) L-x(1,2)-E 16: 7.8401 27( 14) A-x(0,1)-R 17: 7.8401 28( 14) A-x(2,3)-K 18: 7.8401 38( 14) A-x(1,2)-K 19: 7.8401 39( 14) K-x(2,3)-R 20: 7.8401 51( 14) K-x(3,4)-R Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 12.2256 18( 14) L-x-[ADENQT]-L-x(2)-[AEQS] B 2: 12.0102 14( 14) L-x(2,3)-E-L C 3: 12.0001 17( 14) R-x-[ADENQST]-[AILV]-A D 4: 11.0102 16( 14) A-x(4,5)-L-x(2,4)-E E 5: 11.0102 21( 14) R-x(2,3)-A-x(1,3)-K F 6: 10.5102 20( 14) R-x(3,5)-A-x(3,5)-L G 7: 10.5102 24( 14) L-x(1,3)-E-x(1,3)-L H 8: 10.5102 20( 14) L-x(2,4)-L-x(0,2)-E I 9: 10.2584 26( 14) E-L-x-[AENQT] J 10: 10.0710 21( 14) A-x(1,2)-K-[AENT] K 11: 8.3401 26( 14) K-A L 12: 8.3401 21( 14) L-x(2)-E M 13: 8.3401 20( 14) K-T N 14: 8.3401 20( 14) K-x(4)-E O 15: 8.3401 23( 14) R-x-K P 16: 7.8401 41( 14) L-x(1,2)-E Q 17: 7.8401 27( 14) A-x(0,1)-R R 18: 7.8401 28( 14) A-x(2,3)-K S 19: 7.8401 39( 14) K-x(2,3)-R T 20: 7.8401 51( 14) K-x(3,4)-R Best patterns with alignements: fitness hits(seqs) Pattern A 1: 12.2256 18( 14) L-x-[ADENQT]-L-x(2)-[AEQS] Occurences: 18(14) RL29_ACYKS : 18- 24: elnte LlNLlrE qfnlr RL29_BACST : 25- 31: alkee LfNLrfQ latgq RL29_BACSU : 25- 31: slkee LfNLrfQ latgq RL29_CHLTR : 30- 36: dnkka LfALraE aalqn RL29_ECOLI : 18- 24: elnte LlNLlrE qfnlr RL29_HAEIN : 18- 24: elnae LvNLlgE qfklr RL29_HALHA : 21- 27: ereae LeELrtE llnsk RL29_HALMA : 20- 26: ereae LdDLktE llnar RL29_MYCCA : 28- 34: skrae LfALkfQ aavgs RL29_THEMA : 14- 20: ytdee LkNLleE kkrql RL29_THEMA : 25- 31: ekkrq LmELrfQ lamgq RL35_CAEEL : 28- 34: eqkte LaTLrvS kvtgg RL35_HUMAN : 20- 26: ellkq LdDLkvE lsqlr RL35_HUMAN : 27- 33: dlkve LsQLrvA kvtgg RL35_RAT : 20- 26: ellkq LdDLkvE lsqlr RL35_RAT : 27- 33: dlkve LsQLrvA kvtgg RL35_YEAST : 21- 27: qlasq LvDLkkE laelk RL35_YEAST : 28- 34: dlkke LaELkvQ klsrp B 2: 12.0102 14( 14) L-x(2,3)-E-L Occurences: 14(14) RL29_ACYKS : 14- 18: kgvee Lnt-EL lnllr RL29_BACST : 21- 25: qkika Lke-EL fnlrf RL29_BACSU : 21- 25: qkvks Lke-EL fnlrf RL29_CHLTR : 7- 11: gakkn Lla-EL rekss RL29_ECOLI : 14- 18: ksvee Lnt-EL lnllr RL29_HAEIN : 14- 18: ksvee Lna-EL vnllg RL29_HALHA : 24- 28: aelee Lrt-EL lnska RL29_HALMA : 23- 27: aeldd Lkt-EL lnara RL29_MYCCA : 12- 17: ldlen LsvdEL iktne RL29_THEMA : 57- 62: rikti LrerEL girr RL35_CAEEL : 95- 100: airrr LtahEL slrsa RL35_HUMAN : 23- 27: kqldd Lkv-EL sqlrv RL35_RAT : 23- 27: kqldd Lkv-EL sqlrv RL35_YEAST : 24- 28: sqlvd Lkk-EL aelkv C 3: 12.0001 17( 14) R-x-[ADENQST]-[AILV]-A Occurences: 17(14) RL29_ACYKS : 47- 51: llkqv RrNVA rvktl RL29_BACST : 29- 33: elfnl RfQLA tgqle RL29_BACST : 47- 51: rirqv RkDIA rmkti RL29_BACSU : 29- 33: elfnl RfQLA tgqle RL29_BACSU : 47- 51: rirev RkAIA rmktv RL29_CHLTR : 34- 38: alfal RaEAA lqnkv RL29_ECOLI : 29- 33: eqfnl RmQAA sgqlq RL29_ECOLI : 47- 51: llkqv RrDVA rvktl RL29_HAEIN : 47- 51: qakqv RrDIA rvktv RL29_HALHA : 51- 55: risel RkTIA riktv RL29_HALMA : 50- 54: rikel RkAIA rikti RL29_MYCCA : 55- 59: kkeia RiELA lsekr RL29_THEMA : 29- 33: qlmel RfQLA mgqlk RL35_CAEEL : 51- 55: kirvv RkNIA rlltv RL35_HUMAN : 50- 54: kirvv RkSIA rvltv RL35_RAT : 50- 54: kirvv RkSIA rvltv RL35_YEAST : 48- 52: kiktv RkSIA cvltv D 4: 11.0102 16( 14) A-x(4,5)-L-x(2,4)-E Occurences: 16(14) RL29_ACYKS : 51- 59: vrrnv Arvkt-Llt--E kagv RL29_BACST : 3- 13: mk AkeireLtta-E ieqki RL29_BACSU : 3- 13: mk AneirdLtta-E ieqkv RL29_CHLTR : 3- 13: mg Akknl-LaelrE kssee RL29_ECOLI : 51- 59: vrrdv Arvkt-Lln--E kaga RL29_HAEIN : 16- 24: veeln Aelvn-Llg--E qfklr RL29_HALHA : 19- 27: paere Aelee-Lrt--E llnsk RL29_HALMA : 18- 26: paere Aeldd-Lkt--E llnar RL29_MYCCA : 2- 10: m Akskm-Ldl--E nlsvd RL29_MYCCA : 59- 68: ariel AlsekrLsg--E ntnkv RL29_THEMA : 51- 61: tkrdi AriktiLrer-E lgirr RL35_CAEEL : 90- 99: lkktr Airrr-Ltah-E lslrs RL35_HUMAN : 89- 98: pkktr Amrrr-Lnkh-E enlkt RL35_HUMAN : 89- 99: pkktr Amrrr-LnkheE nlktk RL35_RAT : 89- 98: pkktr Amrrr-Ltkh-E eklkt RL35_RAT : 89- 99: pkktr Amrrr-LtkheE klktk RL35_YEAST : 18- 27: skeql AsqlvdLkk--E laelk RL35_YEAST : 87- 96: akktr Alrra-Ltkf-E asqvt E 5: 11.0102 21( 14) R-x(2,3)-A-x(1,3)-K Occurences: 21(14) RL29_ACYKS : 47- 54: llkqv RrnvArv-K tllte RL29_ACYKS : 48- 54: lkqvr Rnv-Arv-K tllte RL29_BACST : 47- 54: rirqv RkdiArm-K tiire RL29_BACST : 60- 66: tiire RelaAn--K RL29_BACST : 60- 66: tiire Rel-Aan-K RL29_BACSU : 47- 54: rirev RkaiArm-K tvire RL29_BACSU : 60- 66: tvire ReiaAn--K RL29_BACSU : 60- 66: tvire Rei-Aan-K RL29_CHLTR : 34- 42: alfal RaeaAlqnK vvkth RL29_ECOLI : 47- 54: llkqv RrdvArv-K tllne RL29_ECOLI : 48- 54: lkqvr Rdv-Arv-K tllne RL29_HAEIN : 47- 54: qakqv RrdiArv-K tvlte RL29_HAEIN : 48- 54: akqvr Rdi-Arv-K tvlte RL29_HALHA : 51- 58: risel RktiAri-K tvqre RL29_HALMA : 50- 57: rikel RkaiAri-K tiqge RL29_MYCCA : 55- 63: kkeia RielAlseK rlsge RL29_THEMA : 48- 54: ikltk Rdi-Ari-K tilre RL35_CAEEL : 70- 77: qkqel RkfyAdh-K ykpid RL35_CAEEL : 112- 118: qqaks Rnq-Avr-K favka RL35_CAEEL : 117- 122: rnqav Rkf-Av--K a RL35_HUMAN : 116- 121: rlypl Rky-Av--K a RL35_RAT : 116- 121: rlypl Rky-Av--K a RL35_YEAST : 114- 119: iafpq Rky-Ai--K a F 6: 10.5102 20( 14) R-x(3,5)-A-x(3,5)-L Occurences: 20(14) RL29_ACYKS : 29- 37: eqfnl Rmqg--Asgq--L qqthl RL29_ACYKS : 47- 56: llkqv Rrnv--Arvkt-L lteka RL29_ACYKS : 47- 57: llkqv Rrnv--ArvktlL tekag RL29_BACST : 29- 37: elfnl Rfql--Atgq--L entar RL29_BACSU : 29- 37: elfnl Rfql--Atgq--L entar RL29_CHLTR : 24- 33: ldefi Rdnkk-Alfa--L raeaa RL29_ECOLI : 29- 37: eqfnl Rmqa--Asgq--L qqshl RL29_ECOLI : 47- 56: llkqv Rrdv--Arvkt-L lneka RL29_ECOLI : 47- 57: llkqv Rrdv--ArvktlL nekag RL29_HAEIN : 29- 37: eqfkl Rmqt--Atgq--L qqthq RL29_HAEIN : 47- 57: qakqv Rrdi--ArvktvL tekag RL29_HALHA : 10- 21: ytsei Rdmtp-AereaeL eelrt RL29_HALMA : 9- 20: hvqei Rdmtp-AereaeL ddlkt RL29_MYCCA : 55- 65: kkeia Riel--AlsekrL sgent RL29_THEMA : 29- 37: qlmel Rfql--Amgq--L kntsl RL35_CAEEL : 10- 21: kcksl RgekkdAlqkk-L deqkt RL35_CAEEL : 84- 95: kpidl RlkktrAirrr-L tahel RL35_CAEEL : 92- 102: ktrai Rrrlt-Ahels-L rsakq RL35_CAEEL : 93- 102: trair Rrlt--Ahels-L rsakq RL35_HUMAN : 83- 94: kpldl RpkktrAmrrr-L nkhee RL35_RAT : 83- 94: kpldl RpkktrAmrrr-L tkhee RL35_YEAST : 81- 92: qpkdl RakktrAlrra-L tkfea G 7: 10.5102 24( 14) L-x(1,3)-E-x(1,3)-L Occurences: 24(14) RL29_ACYKS : 14- 19: kgvee Lnt-El--L nllre RL29_ACYKS : 14- 21: kgvee Lnt-EllnL lreqf RL29_ACYKS : 21- 28: telln Llr-EqfnL rmqga RL29_ACYKS : 22- 28: ellnl Lr--EqfnL rmqga RL29_BACST : 21- 25: qkika Lk--Ee--L fnlrf RL29_BACST : 21- 28: qkika Lke-ElfnL rfqla RL29_BACSU : 21- 25: qkvks Lk--Ee--L fnlrf RL29_BACSU : 21- 28: qkvks Lke-ElfnL rfqla RL29_CHLTR : 33- 39: kalfa Lra-Eaa-L qnkvv RL29_ECOLI : 14- 19: ksvee Lnt-El--L nllre RL29_ECOLI : 14- 21: ksvee Lnt-EllnL lreqf RL29_ECOLI : 21- 28: telln Llr-EqfnL rmqaa RL29_ECOLI : 22- 28: ellnl Lr--EqfnL rmqaa RL29_HAEIN : 14- 21: ksvee Lna-ElvnL lgeqf RL29_HAEIN : 21- 28: aelvn Llg-EqfkL rmqta RL29_HAEIN : 22- 28: elvnl Lg--EqfkL rmqta RL29_HALHA : 24- 29: aelee Lrt-El--L nskav RL29_HALMA : 23- 28: aeldd Lkt-El--L narav RL29_MYCCA : 7- 12: akskm Ldl-En--L svdel RL29_MYCCA : 58- 65: iarie LalsEkr-L sgent RL29_MYCCA : 60- 65: riela Ls--Ekr-L sgent RL29_THEMA : 57- 62: rikti Lr--Ere-L girr RL35_CAEEL : 95- 102: airrr LtahEls-L rsakq RL35_HUMAN : 23- 30: kqldd Lkv-ElsqL rvakv RL35_HUMAN : 94- 101: amrrr LnkhEen-L ktkkq RL35_RAT : 23- 30: kqldd Lkv-ElsqL rvakv RL35_RAT : 94- 101: amrrr LtkhEek-L ktkkq RL35_YEAST : 24- 31: sqlvd Lkk-ElaeL kvqkl H 8: 10.5102 20( 14) L-x(2,4)-L-x(0,2)-E Occurences: 20(14) RL29_ACYKS : 18- 24: elnte Llnl-Lr-E qfnlr RL29_ACYKS : 18- 24: elnte Lln--LlrE qfnlr RL29_ACYKS : 19- 24: lntel Lnl--Lr-E qfnlr RL29_BACST : 32- 38: nlrfq LatgqL--E ntari RL29_BACSU : 32- 38: nlrfq LatgqL--E ntari RL29_CHLTR : 7- 13: gakkn Llae-Lr-E kssee RL29_CHLTR : 8- 13: akknl Lae--Lr-E kssee RL29_CHLTR : 30- 36: dnkka Lfa--LraE aalqn RL29_ECOLI : 18- 24: elnte Llnl-Lr-E qfnlr RL29_ECOLI : 18- 24: elnte Lln--LlrE qfnlr RL29_ECOLI : 19- 24: lntel Lnl--Lr-E qfnlr RL29_HAEIN : 18- 24: elnae Lvnl-Lg-E qfklr RL29_HAEIN : 18- 24: elnae Lvn--LlgE qfklr RL29_HALHA : 21- 27: ereae Lee--LrtE llnsk RL29_HALMA : 20- 26: ereae Ldd--LktE llnar RL29_MYCCA : 60- 68: riela LsekrLsgE ntnkv RL29_THEMA : 14- 19: ytdee Lknl-L--E ekkrq RL29_THEMA : 14- 19: ytdee Lkn--Ll-E ekkrq RL29_THEMA : 14- 20: ytdee Lknl-Le-E kkrql RL29_THEMA : 14- 20: ytdee Lkn--LleE kkrql RL35_CAEEL : 4- 12: mtk LkcksLrgE kkdal RL35_CAEEL : 17- 23: ekkda Lqkk-Ld-E qktel RL35_HUMAN : 20- 26: ellkq Ldd--LkvE lsqlr RL35_RAT : 20- 26: ellkq Ldd--LkvE lsqlr RL35_YEAST : 21- 27: qlasq Lvd--LkkE laelk RL35_YEAST : 24- 30: sqlvd Lkke-La-E lkvqk I 9: 10.2584 26( 14) E-L-x-[AENQT] Occurences: 26(14) RL29_ACYKS : 5- 8: mkaq ELrE kgvee RL29_ACYKS : 13- 16: ekgve ELnT ellnl RL29_ACYKS : 17- 20: eelnt ELlN llreq RL29_BACST : 8- 11: akeir ELtT aeieq RL29_BACST : 24- 27: kalke ELfN lrfql RL29_BACST : 61- 64: iirer ELaA nk RL29_BACSU : 24- 27: kslke ELfN lrfql RL29_CHLTR : 10- 13: knlla ELrE kssee RL29_CHLTR : 18- 21: eksse ELdE firdn RL29_ECOLI : 5- 8: mkak ELrE ksvee RL29_ECOLI : 13- 16: eksve ELnT ellnl RL29_ECOLI : 17- 20: eelnt ELlN llreq RL29_HAEIN : 13- 16: tksve ELnA elvnl RL29_HAEIN : 17- 20: eelna ELvN llgeq RL29_HALHA : 20- 23: aerea ELeE lrtel RL29_HALHA : 23- 26: eaele ELrT ellns RL29_HALHA : 27- 30: eelrt ELlN skavk RL29_HALMA : 26- 29: ddlkt ELlN aravq RL29_MYCCA : 27- 30: eskra ELfA lkfqa RL29_THEMA : 5- 8: mkas ELrN ytdee RL29_THEMA : 13- 16: nytde ELkN lleek RL35_CAEEL : 27- 30: deqkt ELaT lrvsk RL35_HUMAN : 26- 29: ddlkv ELsQ lrvak RL35_RAT : 26- 29: ddlkv ELsQ lrvak RL35_YEAST : 8- 11: gvkay ELrT kskeq RL35_YEAST : 27- 30: vdlkk ELaE lkvqk J 10: 10.0710 21( 14) A-x(1,2)-K-[AENT] Occurences: 21(14) RL29_ACYKS : 51- 55: vrrnv ArvKT lltek RL29_BACST : 20- 23: eqkik Al-KE elfnl RL29_BACST : 51- 55: vrkdi ArmKT iirer RL29_BACSU : 51- 55: vrkai ArmKT virer RL29_CHLTR : 3- 6: mg Ak-KN llael RL29_ECOLI : 51- 55: vrrdv ArvKT llnek RL29_HAEIN : 51- 55: vrrdi ArvKT vltek RL29_HALHA : 33- 36: llnsk Av-KA aggap RL29_HALHA : 55- 59: lrkti AriKT vqree RL29_HALMA : 54- 58: lrkai AriKT iqgee RL29_MYCCA : 85- 88: kavee Ae-KA gkevr RL29_MYCCA : 88- 91: eeaek Ag-KE vrakq RL29_THEMA : 51- 55: tkrdi AriKT ilrer RL35_CAEEL : 120- 123: avrkf Av-KA RL35_HUMAN : 1- 5: AkiKA rdlrg RL35_HUMAN : 119- 122: plrky Av-KA RL35_RAT : 1- 5: AkiKA rdlrg RL35_RAT : 119- 122: plrky Av-KA RL35_YEAST : 2- 6: m AgvKA yelrt RL35_YEAST : 82- 85: pkdlr Ak-KT ralrr RL35_YEAST : 117- 120: pqrky Ai-KA K 11: 8.3401 26( 14) K-A Occurences: 26(14) RL29_ACYKS : 2- 3: m KA qelre RL29_ACYKS : 60- 61: tllte KA gv RL29_BACST : 2- 3: m KA keire RL29_BACST : 19- 20: ieqki KA lkeel RL29_BACSU : 2- 3: m KA neird RL29_BACSU : 48- 49: irevr KA iarmk RL29_CHLTR : 28- 29: irdnk KA lfalr RL29_ECOLI : 2- 3: m KA kelre RL29_ECOLI : 60- 61: tllne KA ga RL29_HAEIN : 2- 3: m KA qdlrt RL29_HAEIN : 60- 61: tvlte KA ge RL29_HALHA : 32- 33: ellns KA vkaag RL29_HALHA : 35- 36: nskav KA aggap RL29_HALMA : 51- 52: ikelr KA iarik RL29_MYCCA : 75- 76: tnkvi KA dynka RL29_MYCCA : 80- 81: kadyn KA veeae RL29_MYCCA : 87- 88: veeae KA gkevr RL29_MYCCA : 119- 120: eadiq KA mqaae RL29_THEMA : 2- 3: m KA selrn RL35_CAEEL : 122- 123: rkfav KA RL35_HUMAN : 4- 5: aki KA rdlrg RL35_HUMAN : 121- 122: rkyav KA RL35_RAT : 4- 5: aki KA rdlrg RL35_RAT : 121- 122: rkyav KA RL35_YEAST : 5- 6: magv KA yelrt RL35_YEAST : 119- 120: rkyai KA L 12: 8.3401 21( 14) L-x(2)-E Occurences: 21(14) RL29_ACYKS : 14- 17: kgvee LntE llnll RL29_ACYKS : 21- 24: telln LlrE qfnlr RL29_ACYKS : 56- 59: arvkt LltE kagv RL29_BACST : 21- 24: qkika LkeE lfnlr RL29_BACSU : 21- 24: qkvks LkeE lfnlr RL29_CHLTR : 7- 10: gakkn LlaE lreks RL29_CHLTR : 33- 36: kalfa LraE aalqn RL29_ECOLI : 14- 17: ksvee LntE llnll RL29_ECOLI : 21- 24: telln LlrE qfnlr RL29_ECOLI : 56- 59: arvkt LlnE kaga RL29_HAEIN : 14- 17: ksvee LnaE lvnll RL29_HAEIN : 21- 24: aelvn LlgE qfklr RL29_HALHA : 24- 27: aelee LrtE llnsk RL29_HALMA : 23- 26: aeldd LktE llnar RL29_MYCCA : 7- 10: akskm LdlE nlsvd RL29_MYCCA : 65- 68: lsekr LsgE ntnkv RL29_THEMA : 17- 20: eelkn LleE kkrql RL35_CAEEL : 9- 12: lkcks LrgE kkdal RL35_HUMAN : 23- 26: kqldd LkvE lsqlr RL35_RAT : 23- 26: kqldd LkvE lsqlr RL35_YEAST : 24- 27: sqlvd LkkE laelk M 13: 8.3401 20( 14) K-T Occurences: 20(14) RL29_ACYKS : 54- 55: nvarv KT lltek RL29_BACST : 54- 55: diarm KT iirer RL29_BACSU : 54- 55: aiarm KT virer RL29_CHLTR : 45- 46: qnkvv KT hqfsl RL29_ECOLI : 54- 55: dvarv KT llnek RL29_HAEIN : 54- 55: diarv KT vltek RL29_HALHA : 52- 53: iselr KT iarik RL29_HALHA : 58- 59: tiari KT vqree RL29_HALMA : 24- 25: elddl KT ellna RL29_HALMA : 57- 58: aiari KT iqgee RL29_MYCCA : 19- 20: vdeli KT neskr RL29_THEMA : 54- 55: diari KT ilrer RL35_CAEEL : 25- 26: kldeq KT elatl RL35_CAEEL : 87- 88: dlrlk KT rairr RL35_HUMAN : 86- 87: dlrpk KT ramrr RL35_HUMAN : 102- 103: heenl KT kkqqr RL35_RAT : 86- 87: dlrpk KT ramrr RL35_RAT : 102- 103: heekl KT kkqqr RL35_YEAST : 45- 46: slpki KT vrksi RL35_YEAST : 84- 85: dlrak KT ralrr N 14: 8.3401 20( 14) K-x(4)-E Occurences: 20(14) RL29_ACYKS : 54- 59: nvarv KtlltE kagv RL29_BACST : 19- 24: ieqki KalkeE lfnlr RL29_BACST : 54- 59: diarm KtiirE relaa RL29_BACSU : 19- 24: ieqkv KslkeE lfnlr RL29_BACSU : 54- 59: aiarm KtvirE reiaa RL29_CHLTR : 5- 10: mgak KnllaE lreks RL29_ECOLI : 54- 59: dvarv KtllnE kaga RL29_HAEIN : 54- 59: diarv KtvltE kage RL29_HALHA : 58- 63: tiari KtvqrE egdla RL29_HALMA : 57- 62: aiari KtiqgE egdlq RL29_MYCCA : 5- 10: maks KmldlE nlsvd RL29_MYCCA : 47- 52: qthri KeikkE iarie RL29_MYCCA : 63- 68: lalse KrlsgE ntnkv RL29_THEMA : 15- 20: tdeel KnlleE kkrql RL29_THEMA : 22- 27: lleek KrqlmE lrfql RL29_THEMA : 54- 59: diari KtilrE relgi RL35_CAEEL : 7- 12: tklkc KslrgE kkdal RL35_HUMAN : 105- 110: nlktk KqqrkE rlypl RL35_RAT : 105- 110: klktk KqqrkE rlypl RL35_YEAST : 25- 30: qlvdl KkelaE lkvqk O 15: 8.3401 23( 14) R-x-K Occurences: 23(14) RL29_ACYKS : 7- 9: kaqel ReK gveel RL29_ACYKS : 52- 54: rrnva RvK tllte RL29_BACST : 52- 54: rkdia RmK tiire RL29_BACSU : 52- 54: rkaia RmK tvire RL29_CHLTR : 12- 14: llael ReK sseel RL29_ECOLI : 7- 9: kakel ReK sveel RL29_ECOLI : 52- 54: rrdva RvK tllne RL29_HAEIN : 7- 9: kaqdl RtK sveel RL29_HAEIN : 52- 54: rrdia RvK tvlte RL29_HALHA : 56- 58: rktia RiK tvqre RL29_HALMA : 45- 47: penpg RiK elrka RL29_HALMA : 55- 57: rkaia RiK tiqge RL29_MYCCA : 45- 47: leqth RiK eikke RL29_MYCCA : 93- 95: agkev RaK qrkfl RL29_THEMA : 52- 54: krdia RiK tilre RL35_CAEEL : 84- 86: kpidl RlK ktrai RL35_HUMAN : 9- 11: kardl RgK kkeel RL35_HUMAN : 83- 85: kpldl RpK ktram RL35_RAT : 9- 11: kardl RgK kkeel RL35_RAT : 83- 85: kpldl RpK ktram RL35_YEAST : 10- 12: kayel RtK skeql RL35_YEAST : 81- 83: qpkdl RaK ktral RL35_YEAST : 105- 107: vtekq RkK qiafp P 16: 7.8401 41( 14) L-x(1,2)-E Occurences: 41(14) RL29_ACYKS : 6- 8: mkaqe Lr-E kgvee RL29_ACYKS : 14- 17: kgvee LntE llnll RL29_ACYKS : 21- 24: telln LlrE qfnlr RL29_ACYKS : 22- 24: ellnl Lr-E qfnlr RL29_ACYKS : 56- 59: arvkt LltE kagv RL29_ACYKS : 57- 59: rvktl Lt-E kagv RL29_BACST : 21- 23: qkika Lk-E elfnl RL29_BACST : 21- 24: qkika LkeE lfnlr RL29_BACSU : 21- 23: qkvks Lk-E elfnl RL29_BACSU : 21- 24: qkvks LkeE lfnlr RL29_CHLTR : 7- 10: gakkn LlaE lreks RL29_CHLTR : 8- 10: akknl La-E lreks RL29_CHLTR : 11- 13: nllae Lr-E kssee RL29_CHLTR : 19- 21: kssee Ld-E firdn RL29_CHLTR : 33- 36: kalfa LraE aalqn RL29_ECOLI : 6- 8: mkake Lr-E ksvee RL29_ECOLI : 14- 17: ksvee LntE llnll RL29_ECOLI : 21- 24: telln LlrE qfnlr RL29_ECOLI : 22- 24: ellnl Lr-E qfnlr RL29_ECOLI : 56- 59: arvkt LlnE kaga RL29_ECOLI : 57- 59: rvktl Ln-E kaga RL29_HAEIN : 14- 17: ksvee LnaE lvnll RL29_HAEIN : 21- 24: aelvn LlgE qfklr RL29_HAEIN : 22- 24: elvnl Lg-E qfklr RL29_HAEIN : 57- 59: rvktv Lt-E kage RL29_HALHA : 21- 23: ereae Le-E lrtel RL29_HALHA : 24- 27: aelee LrtE llnsk RL29_HALMA : 23- 26: aeldd LktE llnar RL29_HALMA : 66- 68: geegd Lq-E ne RL29_MYCCA : 7- 10: akskm LdlE nlsvd RL29_MYCCA : 60- 62: riela Ls-E krlsg RL29_MYCCA : 65- 68: lsekr LsgE ntnkv RL29_MYCCA : 100- 102: kqrkf Le-E qygqq RL29_THEMA : 17- 19: eelkn Ll-E ekkrq RL29_THEMA : 17- 20: eelkn LleE kkrql RL29_THEMA : 18- 20: elknl Le-E kkrql RL29_THEMA : 25- 27: ekkrq Lm-E lrfql RL29_THEMA : 57- 59: rikti Lr-E relgi RL35_CAEEL : 9- 12: lkcks LrgE kkdal RL35_CAEEL : 21- 23: alqkk Ld-E qktel RL35_HUMAN : 23- 26: kqldd LkvE lsqlr RL35_RAT : 23- 26: kqldd LkvE lsqlr RL35_YEAST : 24- 27: sqlvd LkkE laelk RL35_YEAST : 28- 30: dlkke La-E lkvqk Q 17: 7.8401 27( 14) A-x(0,1)-R Occurences: 27(14) RL29_ACYKS : 51- 52: vrrnv A-R vktll RL29_BACST : 41- 42: qlent A-R irqvr RL29_BACST : 51- 52: vrkdi A-R mktii RL29_BACSU : 41- 42: qlent A-R irevr RL29_BACSU : 51- 52: vrkai A-R mktvi RL29_CHLTR : 32- 34: kkalf AlR aeaal RL29_CHLTR : 57- 58: ykksi A-R aliik RL29_ECOLI : 51- 52: vrrdv A-R vktll RL29_HAEIN : 51- 52: vrrdi A-R vktvl RL29_HALHA : 15- 17: rdmtp AeR eaele RL29_HALHA : 55- 56: lrkti A-R iktvq RL29_HALMA : 14- 16: rdmtp AeR eaeld RL29_HALMA : 30- 31: telln A-R avqaa RL29_HALMA : 54- 55: lrkai A-R iktiq RL29_MYCCA : 54- 55: ikkei A-R ielal RL29_THEMA : 51- 52: tkrdi A-R iktil RL35_CAEEL : 55- 56: vrkni A-R lltvi RL35_CAEEL : 90- 92: lkktr AiR rrlta RL35_CAEEL : 115- 117: ksrnq AvR kfavk RL35_HUMAN : 5- 6: akik A-R dlrgk RL35_HUMAN : 54- 55: vrksi A-R vltvi RL35_HUMAN : 89- 91: pkktr AmR rrlnk RL35_RAT : 5- 6: akik A-R dlrgk RL35_RAT : 54- 55: vrksi A-R vltvi RL35_RAT : 89- 91: pkktr AmR rrltk RL35_YEAST : 65- 67: eqqre AvR qlykg RL35_YEAST : 87- 89: akktr AlR raltk R 18: 7.8401 28( 14) A-x(2,3)-K Occurences: 28(14) RL29_ACYKS : 51- 54: vrrnv Arv-K tllte RL29_BACST : 51- 54: vrkdi Arm-K tiire RL29_BACST : 63- 66: rerel Aan-K RL29_BACSU : 51- 54: vrkai Arm-K tvire RL29_BACSU : 63- 66: rerei Aan-K RL29_CHLTR : 38- 42: lraea AlqnK vvkth RL29_CHLTR : 59- 63: ksiar AliiK qekkg RL29_ECOLI : 51- 54: vrrdv Arv-K tllne RL29_HAEIN : 51- 54: vrrdi Arv-K tvlte RL29_HALHA : 55- 58: lrkti Ari-K tvqre RL29_HALMA : 54- 57: lrkai Ari-K tiqge RL29_MYCCA : 2- 5: m Aks-K mldle RL29_MYCCA : 59- 63: ariel AlseK rlsge RL29_MYCCA : 76- 80: nkvik AdynK aveea RL29_MYCCA : 94- 98: gkevr AkqrK fleeq RL29_MYCCA : 115- 119: tkvne AdiqK amqaa RL29_THEMA : 51- 54: tkrdi Ari-K tilre RL35_CAEEL : 16- 19: gekkd Alq-K kldeq RL35_CAEEL : 16- 20: gekkd AlqkK ldeqk RL35_CAEEL : 40- 43: kvtgg Aas-K lskir RL35_CAEEL : 74- 77: lrkfy Adh-K ykpid RL35_CAEEL : 115- 118: ksrnq Avr-K favka RL35_HUMAN : 1- 4: Aki-K ardlr RL35_HUMAN : 39- 42: kvtgg Aas-K lskir RL35_RAT : 1- 4: Aki-K ardlr RL35_RAT : 39- 42: kvtgg Aas-K lskir RL35_YEAST : 2- 5: m Agv-K ayelr RL35_YEAST : 29- 32: lkkel Ael-K vqkls RL35_YEAST : 91- 94: ralrr Alt-K feasq S 19: 7.8401 39( 14) K-x(2,3)-R Occurences: 39(14) RL29_ACYKS : 44- 47: qthll Kqv-R rnvar RL29_ACYKS : 44- 48: qthll KqvrR nvarv RL29_BACST : 4- 7: mka Kei-R eltta RL29_BACST : 48- 52: irqvr KdiaR mktii RL29_BACST : 54- 58: diarm KtiiR erela RL29_BACSU : 48- 52: irevr KaiaR mktvi RL29_BACSU : 54- 58: aiarm KtviR ereia RL29_CHLTR : 54- 58: fslyk KsiaR aliik RL29_CHLTR : 66- 69: iikqe Kkg-R vhg RL29_ECOLI : 4- 7: mka Kel-R eksve RL29_ECOLI : 44- 47: qshll Kqv-R rdvar RL29_ECOLI : 44- 48: qshll KqvrR dvarv RL29_HAEIN : 44- 47: qthqa Kqv-R rdiar RL29_HAEIN : 44- 48: qthqa KqvrR diarv RL29_HALHA : 52- 56: iselr KtiaR iktvq RL29_HALHA : 58- 62: tiari KtvqR eegdl RL29_HALMA : 47- 50: npgri Kel-R kaiar RL29_HALMA : 51- 55: ikelr KaiaR iktiq RL29_MYCCA : 51- 55: ikeik KeiaR ielal RL29_MYCCA : 90- 93: aekag Kev-R akqrk RL29_THEMA : 44- 48: ntsli KltkR diari RL29_THEMA : 54- 58: diari KtilR erelg RL35_CAEEL : 7- 10: tklkc Ksl-R gekkd RL35_CAEEL : 52- 56: irvvr KniaR lltvi RL35_CAEEL : 66- 70: inqtq KqelR kfyad RL35_CAEEL : 86- 89: idlrl Kkt-R airrr RL35_HUMAN : 2- 6: a KikaR dlrgk RL35_HUMAN : 51- 55: irvvr KsiaR vltvi RL35_HUMAN : 65- 69: inqtq KenlR kfykg RL35_HUMAN : 85- 88: ldlrp Kkt-R amrrr RL35_HUMAN : 104- 108: enlkt KkqqR kerly RL35_HUMAN : 105- 108: nlktk Kqq-R kerly RL35_RAT : 2- 6: a KikaR dlrgk RL35_RAT : 51- 55: irvvr KsiaR vltvi RL35_RAT : 65- 69: inqtq KenlR kfykg RL35_RAT : 85- 88: ldlrp Kkt-R amrrr RL35_RAT : 104- 108: eklkt KkqqR kerly RL35_RAT : 105- 108: klktk Kqq-R kerly RL35_YEAST : 35- 38: elkvq Kls-R pslpk RL35_YEAST : 45- 48: slpki Ktv-R ksiac RL35_YEAST : 78- 81: kkyqp Kdl-R akktr RL35_YEAST : 83- 86: kdlra Kkt-R alrra T 20: 7.8401 51( 14) K-x(3,4)-R Occurences: 51(14) RL29_ACYKS : 2- 7: m KaqelR ekgve RL29_ACYKS : 44- 48: qthll Kqvr-R nvarv RL29_BACST : 2- 7: m KakeiR eltta RL29_BACST : 48- 52: irqvr Kdia-R mktii RL29_BACST : 54- 58: diarm Ktii-R erela RL29_BACSU : 2- 7: m KaneiR dltta RL29_BACSU : 48- 52: irevr Kaia-R mktvi RL29_BACSU : 54- 58: aiarm Ktvi-R ereia RL29_CHLTR : 53- 58: qfsly KksiaR aliik RL29_CHLTR : 54- 58: fslyk Ksia-R aliik RL29_ECOLI : 2- 7: m KakelR eksve RL29_ECOLI : 44- 48: qshll Kqvr-R dvarv RL29_HAEIN : 2- 7: m KaqdlR tksve RL29_HAEIN : 44- 48: qthqa Kqvr-R diarv RL29_HALHA : 52- 56: iselr Ktia-R iktvq RL29_HALHA : 58- 62: tiari Ktvq-R eegdl RL29_HALMA : 51- 55: ikelr Kaia-R iktiq RL29_MYCCA : 50- 55: rikei KkeiaR ielal RL29_MYCCA : 51- 55: ikeik Keia-R ielal RL29_THEMA : 2- 7: m KaselR nytde RL29_THEMA : 44- 48: ntsli Kltk-R diari RL29_THEMA : 47- 52: liklt KrdiaR iktil RL29_THEMA : 54- 58: diari Ktil-R erelg RL35_CAEEL : 5- 10: mtkl KckslR gekkd RL35_CAEEL : 43- 48: ggaas KlskiR vvrkn RL35_CAEEL : 46- 51: askls KirvvR kniar RL35_CAEEL : 52- 56: irvvr Knia-R lltvi RL35_CAEEL : 66- 70: inqtq Kqel-R kfyad RL35_CAEEL : 79- 84: adhky KpidlR lkktr RL35_CAEEL : 87- 92: dlrlk KtraiR rrlta RL35_HUMAN : 2- 6: a Kika-R dlrgk RL35_HUMAN : 4- 9: aki KardlR gkkke RL35_HUMAN : 42- 47: ggaas KlskiR vvrks RL35_HUMAN : 45- 50: askls KirvvR ksiar RL35_HUMAN : 51- 55: irvvr Ksia-R vltvi RL35_HUMAN : 65- 69: inqtq Kenl-R kfykg RL35_HUMAN : 78- 83: kgkky KpldlR pkktr RL35_HUMAN : 86- 91: dlrpk KtramR rrlnk RL35_HUMAN : 104- 108: enlkt Kkqq-R kerly RL35_RAT : 2- 6: a Kika-R dlrgk RL35_RAT : 4- 9: aki KardlR gkkke RL35_RAT : 42- 47: ggaas KlskiR vvrks RL35_RAT : 45- 50: askls KirvvR ksiar RL35_RAT : 51- 55: irvvr Ksia-R vltvi RL35_RAT : 65- 69: inqtq Kenl-R kfykg RL35_RAT : 78- 83: kgkky KpldlR pkktr RL35_RAT : 86- 91: dlrpk KtramR rrltk RL35_RAT : 104- 108: eklkt Kkqq-R kerly RL35_YEAST : 5- 10: magv KayelR tkske RL35_YEAST : 43- 48: rpslp KiktvR ksiac RL35_YEAST : 84- 89: dlrak KtralR raltk Number of patterns evaluated by Pratt:135 Total 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