------------------------------------------------------------ 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 17 sequences from file THIONIN PATTERN CONSERVATION: CM: min Nr of Seqs to Match 17 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 THIONIN.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: CRAM_CRAAB 46 THN1_VISAL 46 THN1_WHEAT 126 THN2_VISAL 46 THN2_WHEAT 136 THN3_HORVU 137 THN3_VISAL 111 THN5_HORVU 137 THN6_HORVU 46 THNA_HORVU 127 THNB_HORVU 136 THNB_VISAL 103 THNB_WHEAT 45 THN_DENCL 46 THN_PHOLI 46 THN_PHOTO 46 THN_PYRPU 47 Pratt run started at Thu Feb 6 21:26:49 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 20.8503 17( 17) C-C-x(5)-R-x(5)-C-x(3)-G 2: 16.6802 17( 17) C-x(5)-R-x(5)-C-x(3)-G 3: 12.5102 17( 17) R-x(5)-C-x(3)-G 4: 12.0102 17( 17) Y-x(2)-C-x(3,4)-G 5: 11.5102 26( 17) C-x(4)-G-x(2,4)-C 6: 11.0102 27( 17) C-x(0,1)-R-x(2,4)-G 7: 10.5102 28( 17) C-x(0,2)-A-x(2,4)-C 8: 8.3401 23( 17) C-P 9: 8.3401 34( 17) C-R 10: 8.3401 27( 17) A-x(4)-C 11: 8.3401 22( 17) R-x(5)-C 12: 7.8401 35( 17) S-x(3,4)-C 13: 7.8401 42( 17) C-x(2,3)-T 14: 7.8401 39( 17) C-x(2,3)-S 15: 7.8401 35( 17) A-x(3,4)-C 16: 7.8401 41( 17) C-x(4,5)-R 17: 7.8401 34( 17) C-x(1,2)-T 18: 7.3401 44( 17) G-x(2,4)-C 19: 7.3401 52( 17) A-x(2,4)-C 20: 7.3401 25( 17) R-x(0,2)-G Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 32.9907 17( 17) C-C-x(4)-[AG]-R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] B 2: 28.8207 17( 17) C-x(4)-[AG]-R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] C 3: 25.1505 17( 17) C-x(4,5)-R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] D 4: 21.4805 17( 17) R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] E 5: 19.6171 19( 17) C-x(0,2)-A-x(2,4)-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] F 6: 19.3472 19( 17) A-x(2)-[CNSTV]-x-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] G 7: 16.9470 20( 17) A-x(3,4)-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] H 8: 16.4470 24( 17) A-x(2,4)-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] I 9: 14.2003 17( 17) Y-x(2)-C-x(3,4)-G-[AGST] J 10: 13.2003 17( 17) C-x(0,1)-R-x(2,4)-G-[AGST] K 11: 13.1988 28( 17) C-R-x(2)-[GLV]-[ACGT] L 12: 13.1759 19( 17) C-P-x-[DGST]-x-[AGP] M 13: 11.5102 26( 17) C-x(4)-G-x(2,4)-C N 14: 10.1006 38( 17) C-x(2,3)-T-x-[ACGT] O 15: 10.1006 27( 17) C-x(1,2)-T-x-[ACGT] P 16: 9.5829 23( 17) R-x(0,2)-G-[AGQT] Q 17: 8.3401 22( 17) R-x(5)-C R 18: 7.8401 35( 17) S-x(3,4)-C S 19: 7.8401 39( 17) C-x(2,3)-S T 20: 7.3401 44( 17) G-x(2,4)-C Best patterns with alignements: fitness hits(seqs) Pattern A 1: 32.9907 17( 17) C-C-x(4)-[AG]-R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] Occurences: 17(17) CRAM_CRAAB : 3- 21: tt CCpsivARsnFnvCRlpGT peaic THN1_VISAL : 3- 21: ks CCpbttGRbiYbtCRfgGG srzvc THN1_WHEAT : 19- 37: vegks CCrstlGRncYnlCRarGA qklca THN2_VISAL : 3- 21: ks CCpnttGRniYntCRfgGG srevc THN2_WHEAT : 30- 48: vegks CCrttlGRncYnlCRsrGA qklcs THN3_HORVU : 31- 49: vegks CCkatlARncYntCHfaGG srpvc THN3_VISAL : 29- 47: vesks CCpnttGRniYnaCRltGA prptc THN5_HORVU : 31- 49: veaks CCknttGRncYnaCRfaGG srpvc THN6_HORVU : 3- 21: ks CCkdtlARncYntCRfaGG srpvc THNA_HORVU : 21- 39: vegks CCrstlGRncYnlCRvrGA qklca THNB_HORVU : 30- 48: vegks CCrstlGRncYnlCRvrGA qklca THNB_VISAL : 9- 27: vesks CCpnttGRniYntCRlgGG srerc THNB_WHEAT : 3- 21: ks CCkstlGRncYnlCRarGA qklca THN_DENCL : 3- 21: ks CCpttaARnqYniCRlpGT prpvc THN_PHOLI : 3- 21: ks CCpsttARniYntCRltGT srptc THN_PHOTO : 3- 21: ks CCptttARniYntCRfgGG srpvc THN_PYRPU : 3- 21: ks CCrntwARncYnvCRlpGT isrei B 2: 28.8207 17( 17) C-x(4)-[AG]-R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] Occurences: 17(17) CRAM_CRAAB : 4- 21: ttc CpsivARsnFnvCRlpGT peaic THN1_VISAL : 4- 21: ksc CpbttGRbiYbtCRfgGG srzvc THN1_WHEAT : 20- 37: egksc CrstlGRncYnlCRarGA qklca THN2_VISAL : 4- 21: ksc CpnttGRniYntCRfgGG srevc THN2_WHEAT : 31- 48: egksc CrttlGRncYnlCRsrGA qklcs THN3_HORVU : 32- 49: egksc CkatlARncYntCHfaGG srpvc THN3_VISAL : 30- 47: esksc CpnttGRniYnaCRltGA prptc THN5_HORVU : 32- 49: eaksc CknttGRncYnaCRfaGG srpvc THN6_HORVU : 4- 21: ksc CkdtlARncYntCRfaGG srpvc THNA_HORVU : 22- 39: egksc CrstlGRncYnlCRvrGA qklca THNB_HORVU : 31- 48: egksc CrstlGRncYnlCRvrGA qklca THNB_VISAL : 10- 27: esksc CpnttGRniYntCRlgGG srerc THNB_WHEAT : 4- 21: ksc CkstlGRncYnlCRarGA qklca THN_DENCL : 4- 21: ksc CpttaARnqYniCRlpGT prpvc THN_PHOLI : 4- 21: ksc CpsttARniYntCRltGT srptc THN_PHOTO : 4- 21: ksc CptttARniYntCRfgGG srpvc THN_PYRPU : 4- 21: ksc CrntwARncYnvCRlpGT isrei C 3: 25.1505 17( 17) C-x(4,5)-R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] Occurences: 17(17) CRAM_CRAAB : 4- 21: ttc CpsivaRsnFnvCRlpGT peaic THN1_VISAL : 4- 21: ksc CpbttgRbiYbtCRfgGG srzvc THN1_WHEAT : 20- 37: egksc CrstlgRncYnlCRarGA qklca THN2_VISAL : 4- 21: ksc CpnttgRniYntCRfgGG srevc THN2_WHEAT : 31- 48: egksc CrttlgRncYnlCRsrGA qklcs THN3_HORVU : 32- 49: egksc CkatlaRncYntCHfaGG srpvc THN3_VISAL : 30- 47: esksc CpnttgRniYnaCRltGA prptc THN5_HORVU : 32- 49: eaksc CknttgRncYnaCRfaGG srpvc THN6_HORVU : 4- 21: ksc CkdtlaRncYntCRfaGG srpvc THNA_HORVU : 22- 39: egksc CrstlgRncYnlCRvrGA qklca THNB_HORVU : 31- 48: egksc CrstlgRncYnlCRvrGA qklca THNB_VISAL : 10- 27: esksc CpnttgRniYntCRlgGG srerc THNB_WHEAT : 4- 21: ksc CkstlgRncYnlCRarGA qklca THN_DENCL : 4- 21: ksc CpttaaRnqYniCRlpGT prpvc THN_PHOLI : 4- 21: ksc CpsttaRniYntCRltGT srptc THN_PHOTO : 4- 21: ksc CptttaRniYntCRfgGG srpvc THN_PYRPU : 4- 21: ksc CrntwaRncYnvCRlpGT isrei D 4: 21.4805 17( 17) R-x(2)-[FY]-x(2)-C-[HR]-x(2)-G-[AGT] Occurences: 17(17) CRAM_CRAAB : 10- 21: psiva RsnFnvCRlpGT peaic THN1_VISAL : 10- 21: pbttg RbiYbtCRfgGG srzvc THN1_WHEAT : 26- 37: rstlg RncYnlCRarGA qklca THN2_VISAL : 10- 21: pnttg RniYntCRfgGG srevc THN2_WHEAT : 37- 48: rttlg RncYnlCRsrGA qklcs THN3_HORVU : 38- 49: katla RncYntCHfaGG srpvc THN3_VISAL : 36- 47: pnttg RniYnaCRltGA prptc THN5_HORVU : 38- 49: knttg RncYnaCRfaGG srpvc THN6_HORVU : 10- 21: kdtla RncYntCRfaGG srpvc THNA_HORVU : 28- 39: rstlg RncYnlCRvrGA qklca THNB_HORVU : 37- 48: rstlg RncYnlCRvrGA qklca THNB_VISAL : 16- 27: pnttg RniYntCRlgGG srerc THNB_WHEAT : 10- 21: kstlg RncYnlCRarGA qklca THN_DENCL : 10- 21: pttaa RnqYniCRlpGT prpvc THN_PHOLI : 10- 21: pstta RniYntCRltGT srptc THN_PHOTO : 10- 21: pttta RniYntCRfgGG srpvc THN_PYRPU : 10- 21: rntwa RncYnvCRlpGT isrei E 5: 19.6171 19( 17) C-x(0,2)-A-x(2,4)-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] Occurences: 19(17) CRAM_CRAAB : 26- 40: tpeai C--AtytgCiIipGatC pgdya THN1_VISAL : 26- 40: gsrzv C--ArisgCkIisAstC psypb THN1_WHEAT : 41- 55: gaqkl C--AgvcrCkIssGlsC pkgfp THN1_WHEAT : 106- 122: lyven CadAcvsfCnGdaGlpS lday THN2_VISAL : 26- 40: gsrev C--AslsgCkIisAstC psypd THN2_WHEAT : 117- 133: lyven CgdAcvnfCnGdaGltS lda THN3_HORVU : 54- 68: gsrpv CagAcr--CkIisGpkC psdyp THN3_HORVU : 54- 68: gsrpv C--AgacrCkIisGpkC psdyp THN3_VISAL : 52- 66: aprpt C--AklsgCkIisGstC psdyp THN5_HORVU : 54- 68: gsrpv CatAcg--CkIisGptC prdyp THN5_HORVU : 54- 68: gsrpv C--AtacgCkIisGptC prdyp THN6_HORVU : 26- 40: gsrpv CagAcr--CkIisGpkC psdyp THN6_HORVU : 26- 40: gsrpv C--AgacrCkIisGpkC psdyp THNA_HORVU : 108- 124: lylen CgdAcvnfCnGdaGltS lta THNB_HORVU : 52- 66: gaqkl CanAcr--CkLtsGlkC pssfp THNB_HORVU : 52- 66: gaqkl C--AnacrCkLtsGlkC pssfp THNB_HORVU : 117- 133: lyveh CsdAcvnfCnGdvGltS lta THNB_VISAL : 32- 46: gsrer C--AslsgCkIisAstC psdyp THNB_WHEAT : 25- 39: gaqkl C--AnvcrCkLtsGlsC pkdfp THN_DENCL : 26- 40: tprpv Ca-Alsg-CkIisGtgC ppgyr THN_DENCL : 26- 40: tprpv C--AalsgCkIisGtgC ppgyr THN_PHOLI : 26- 40: tsrpt C--AslsgCkIisGstC bsgwb THN_PHOTO : 26- 40: gsrpv C--AklsgCkIisGtkC dsgwn THN_PYRPU : 27- 41: isrei C--AkkcdCkIisGttC psdyp F 6: 19.3472 19( 17) A-x(2)-[CNSTV]-x-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] Occurences: 19(17) CRAM_CRAAB : 27- 40: peaic AtyTgCiIipGatC pgdya THN1_VISAL : 27- 40: srzvc AriSgCkIisAstC psypb THN1_WHEAT : 42- 55: aqklc AgvCrCkIssGlsC pkgfp THN1_WHEAT : 109- 122: encad AcvSfCnGdaGlpS lday THN2_VISAL : 27- 40: srevc AslSgCkIisAstC psypd THN2_WHEAT : 120- 133: encgd AcvNfCnGdaGltS lda THN3_HORVU : 55- 68: srpvc AgaCrCkIisGpkC psdyp THN3_VISAL : 53- 66: prptc AklSgCkIisGstC psdyp THN5_HORVU : 55- 68: srpvc AtaCgCkIisGptC prdyp THN6_HORVU : 27- 40: srpvc AgaCrCkIisGpkC psdyp THNA_HORVU : 111- 124: encgd AcvNfCnGdaGltS lta THNB_HORVU : 53- 66: aqklc AnaCrCkLtsGlkC pssfp THNB_HORVU : 120- 133: ehcsd AcvNfCnGdvGltS lta THNB_VISAL : 33- 46: srerc AslSgCkIisAstC psdyp THNB_WHEAT : 26- 39: aqklc AnvCrCkLtsGlsC pkdfp THN_DENCL : 27- 40: prpvc AalSgCkIisGtgC ppgyr THN_PHOLI : 27- 40: srptc AslSgCkIisGstC bsgwb THN_PHOTO : 27- 40: srpvc AklSgCkIisGtkC dsgwn THN_PYRPU : 28- 41: sreic AkkCdCkIisGttC psdyp G 7: 16.9470 20( 17) A-x(3,4)-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] Occurences: 20(17) CRAM_CRAAB : 27- 40: peaic AtytgCiIipGatC pgdya THN1_VISAL : 27- 40: srzvc ArisgCkIisAstC psypb THN1_WHEAT : 42- 55: aqklc AgvcrCkIssGlsC pkgfp THN1_WHEAT : 109- 122: encad AcvsfCnGdaGlpS lday THN2_VISAL : 27- 40: srevc AslsgCkIisAstC psypd THN2_WHEAT : 120- 133: encgd AcvnfCnGdaGltS lda THN3_HORVU : 55- 68: srpvc AgacrCkIisGpkC psdyp THN3_VISAL : 53- 66: prptc AklsgCkIisGstC psdyp THN5_HORVU : 55- 68: srpvc AtacgCkIisGptC prdyp THN6_HORVU : 27- 40: srpvc AgacrCkIisGpkC psdyp THNA_HORVU : 111- 124: encgd AcvnfCnGdaGltS lta THNB_HORVU : 53- 66: aqklc AnacrCkLtsGlkC pssfp THNB_HORVU : 120- 133: ehcsd AcvnfCnGdvGltS lta THNB_VISAL : 33- 46: srerc AslsgCkIisAstC psdyp THNB_WHEAT : 26- 39: aqklc AnvcrCkLtsGlsC pkdfp THN_DENCL : 27- 40: prpvc AalsgCkIisGtgC ppgyr THN_DENCL : 28- 40: rpvca Alsg-CkIisGtgC ppgyr THN_PHOLI : 27- 40: srptc AslsgCkIisGstC bsgwb THN_PHOTO : 27- 40: srpvc AklsgCkIisGtkC dsgwn THN_PYRPU : 28- 41: sreic AkkcdCkIisGttC psdyp H 8: 16.4470 24( 17) A-x(2,4)-C-x-[GIL]-x(2)-[AG]-x(2)-[CS] Occurences: 24(17) CRAM_CRAAB : 27- 40: peaic AtytgCiIipGatC pgdya THN1_VISAL : 27- 40: srzvc ArisgCkIisAstC psypb THN1_WHEAT : 42- 55: aqklc AgvcrCkIssGlsC pkgfp THN1_WHEAT : 109- 122: encad AcvsfCnGdaGlpS lday THN2_VISAL : 27- 40: srevc AslsgCkIisAstC psypd THN2_WHEAT : 120- 133: encgd AcvnfCnGdaGltS lda THN3_HORVU : 55- 68: srpvc AgacrCkIisGpkC psdyp THN3_HORVU : 57- 68: pvcag Acr--CkIisGpkC psdyp THN3_VISAL : 53- 66: prptc AklsgCkIisGstC psdyp THN5_HORVU : 55- 68: srpvc AtacgCkIisGptC prdyp THN5_HORVU : 57- 68: pvcat Acg--CkIisGptC prdyp THN6_HORVU : 27- 40: srpvc AgacrCkIisGpkC psdyp THN6_HORVU : 29- 40: pvcag Acr--CkIisGpkC psdyp THNA_HORVU : 111- 124: encgd AcvnfCnGdaGltS lta THNB_HORVU : 53- 66: aqklc AnacrCkLtsGlkC pssfp THNB_HORVU : 55- 66: klcan Acr--CkLtsGlkC pssfp THNB_HORVU : 120- 133: ehcsd AcvnfCnGdvGltS lta THNB_VISAL : 33- 46: srerc AslsgCkIisAstC psdyp THNB_WHEAT : 26- 39: aqklc AnvcrCkLtsGlsC pkdfp THN_DENCL : 27- 40: prpvc AalsgCkIisGtgC ppgyr THN_DENCL : 28- 40: rpvca Alsg-CkIisGtgC ppgyr THN_PHOLI : 27- 40: srptc AslsgCkIisGstC bsgwb THN_PHOTO : 27- 40: srpvc AklsgCkIisGtkC dsgwn THN_PYRPU : 28- 41: sreic AkkcdCkIisGttC psdyp I 9: 14.2003 17( 17) Y-x(2)-C-x(3,4)-G-[AGST] Occurences: 17(17) CRAM_CRAAB : 29- 38: aicat YtgCiiipGA tcpgd THN1_VISAL : 13- 21: tgrbi YbtCrfg-GG srzvc THN1_VISAL : 13- 22: tgrbi YbtCrfggGS rzvca THN1_WHEAT : 29- 37: lgrnc YnlCrar-GA qklca THN2_VISAL : 13- 21: tgrni YntCrfg-GG srevc THN2_VISAL : 13- 22: tgrni YntCrfggGS revca THN2_WHEAT : 40- 48: lgrnc YnlCrsr-GA qklcs THN3_HORVU : 41- 49: larnc YntChfa-GG srpvc THN3_HORVU : 41- 50: larnc YntChfagGS rpvca THN3_VISAL : 39- 47: tgrni YnaCrlt-GA prptc THN5_HORVU : 41- 49: tgrnc YnaCrfa-GG srpvc THN5_HORVU : 41- 50: tgrnc YnaCrfagGS rpvca THN6_HORVU : 13- 21: larnc YntCrfa-GG srpvc THN6_HORVU : 13- 22: larnc YntCrfagGS rpvca THNA_HORVU : 31- 39: lgrnc YnlCrvr-GA qklca THNB_HORVU : 40- 48: lgrnc YnlCrvr-GA qklca THNB_VISAL : 19- 27: tgrni YntCrlg-GG srerc THNB_VISAL : 19- 28: tgrni YntCrlggGS rerca THNB_WHEAT : 13- 21: lgrnc YnlCrar-GA qklca THN_DENCL : 13- 21: aarnq YniCrlp-GT prpvc THN_PHOLI : 13- 21: tarni YntCrlt-GT srptc THN_PHOTO : 13- 21: tarni YntCrfg-GG srpvc THN_PHOTO : 13- 22: tarni YntCrfggGS rpvca THN_PYRPU : 13- 21: warnc YnvCrlp-GT isrei J 10: 13.2003 17( 17) C-x(0,1)-R-x(2,4)-G-[AGST] Occurences: 17(17) CRAM_CRAAB : 16- 21: snfnv C-Rlp--GT peaic THN1_VISAL : 16- 21: biybt C-Rfg--GG srzvc THN1_VISAL : 16- 22: biybt C-Rfgg-GS rzvca THN1_WHEAT : 32- 37: ncynl C-Rar--GA qklca THN2_VISAL : 16- 21: niynt C-Rfg--GG srevc THN2_VISAL : 16- 22: niynt C-Rfgg-GS revca THN2_WHEAT : 43- 48: ncynl C-Rsr--GA qklcs THN3_HORVU : 122- 130: lcsna CaRfcndGA viqsv THN3_VISAL : 42- 47: niyna C-Rlt--GA prptc THN5_HORVU : 44- 49: ncyna C-Rfa--GG srpvc THN5_HORVU : 44- 50: ncyna C-Rfag-GS rpvca THN6_HORVU : 16- 21: ncynt C-Rfa--GG srpvc THN6_HORVU : 16- 22: ncynt C-Rfag-GS rpvca THNA_HORVU : 34- 39: ncynl C-Rvr--GA qklca THNB_HORVU : 43- 48: ncynl C-Rvr--GA qklca THNB_VISAL : 22- 27: niynt C-Rlg--GG srerc THNB_VISAL : 22- 28: niynt C-Rlgg-GS rerca THNB_WHEAT : 16- 21: ncynl C-Rar--GA qklca THN_DENCL : 16- 21: nqyni C-Rlp--GT prpvc THN_PHOLI : 16- 21: niynt C-Rlt--GT srptc THN_PHOTO : 16- 21: niynt C-Rfg--GG srpvc THN_PHOTO : 16- 22: niynt C-Rfgg-GS rpvca THN_PYRPU : 16- 21: ncynv C-Rlp--GT isrei K 11: 13.1988 28( 17) C-R-x(2)-[GLV]-[ACGT] Occurences: 28(17) CRAM_CRAAB : 16- 21: snfnv CRlpGT peaic THN1_VISAL : 16- 21: biybt CRfgGG srzvc THN1_WHEAT : 20- 25: egksc CRstLG rncyn THN1_WHEAT : 32- 37: ncynl CRarGA qklca THN1_WHEAT : 81- 86: ycnlg CRssVC dymvn THN2_VISAL : 16- 21: niynt CRfgGG srevc THN2_WHEAT : 31- 36: egksc CRttLG rncyn THN2_WHEAT : 43- 48: ncynl CRsrGA qklcs THN2_WHEAT : 56- 61: lcstv CRckLT sglsc THN2_WHEAT : 92- 97: ycnlg CRssVC dymvn THN3_HORVU : 94- 99: yctig CRnsVC dnmdn THN3_VISAL : 42- 47: niyna CRltGA prptc THN5_HORVU : 44- 49: ncyna CRfaGG srpvc THN5_HORVU : 94- 99: yctig CRtsVC dnmdn THN6_HORVU : 16- 21: ncynt CRfaGG srpvc THNA_HORVU : 22- 27: egksc CRstLG rncyn THNA_HORVU : 34- 39: ncynl CRvrGA qklca THNA_HORVU : 47- 52: lcagv CRckLT ssgkc THNB_HORVU : 31- 36: egksc CRstLG rncyn THNB_HORVU : 43- 48: ncynl CRvrGA qklca THNB_HORVU : 56- 61: lcana CRckLT sglkc THNB_VISAL : 22- 27: niynt CRlgGG srerc THNB_WHEAT : 16- 21: ncynl CRarGA qklca THNB_WHEAT : 29- 34: lcanv CRckLT sglsc THN_DENCL : 16- 21: nqyni CRlpGT prpvc THN_PHOLI : 16- 21: niynt CRltGT srptc THN_PHOTO : 16- 21: niynt CRfgGG srpvc THN_PYRPU : 16- 21: ncynv CRlpGT isrei L 12: 13.1759 19( 17) C-P-x-[DGST]-x-[AGP] Occurences: 19(17) CRAM_CRAAB : 40- 45: ipgat CPgDyA n THN1_VISAL : 4- 9: ksc CPbTtG rbiyb THN1_WHEAT : 55- 60: ssgls CPkGfP klale THN2_VISAL : 4- 9: ksc CPnTtG rniyn THN2_WHEAT : 66- 71: tsgls CPkGfP klale THN3_HORVU : 68- 73: isgpk CPsDyP klnll THN3_VISAL : 30- 35: esksc CPnTtG rniyn THN3_VISAL : 66- 71: isgst CPsDyP kfyct THN5_HORVU : 68- 73: isgpt CPrDyP klnll THN6_HORVU : 40- 45: isgpk CPsDyP k THNA_HORVU : 57- 62: tssgk CPtGfP klalv THNB_HORVU : 66- 71: tsglk CPsSfP klalv THNB_VISAL : 10- 15: esksc CPnTtG rniyn THNB_VISAL : 46- 51: isast CPsDyP kfyct THNB_WHEAT : 39- 44: tsgls CPkDfP k THN_DENCL : 4- 9: ksc CPtTaA rnqyn THN_PHOLI : 4- 9: ksc CPsTtA rniyn THN_PHOTO : 4- 9: ksc CPtTtA rniyn THN_PYRPU : 41- 46: isgtt CPsDyP k M 13: 11.5102 26( 17) C-x(4)-G-x(2,4)-C Occurences: 26(17) CRAM_CRAAB : 32- 40: atytg CiiipGat--C pgdya THN1_VISAL : 16- 26: biybt CrfggGsrzvC arisg THN1_WHEAT : 20- 28: egksc CrstlGrn--C ynlcr THN1_WHEAT : 47- 55: agvcr CkissGls--C pkgfp THN2_VISAL : 16- 26: niynt CrfggGsrevC aslsg THN2_WHEAT : 31- 39: egksc CrttlGrn--C ynlcr THN2_WHEAT : 58- 66: stvcr CkltsGls--C pkgfp THN3_HORVU : 44- 54: ncynt ChfagGsrpvC agacr THN3_HORVU : 60- 68: agacr CkiisGpk--C psdyp THN3_VISAL : 58- 66: aklsg CkiisGst--C psdyp THN5_HORVU : 32- 40: eaksc CknttGrn--C ynacr THN5_HORVU : 44- 54: ncyna CrfagGsrpvC atacg THN5_HORVU : 60- 68: atacg CkiisGpt--C prdyp THN6_HORVU : 16- 26: ncynt CrfagGsrpvC agacr THN6_HORVU : 32- 40: agacr CkiisGpk--C psdyp THNA_HORVU : 22- 30: egksc CrstlGrn--C ynlcr THNB_HORVU : 31- 39: egksc CrstlGrn--C ynlcr THNB_HORVU : 58- 66: anacr CkltsGlk--C pssfp THNB_VISAL : 22- 32: niynt CrlggGsrerC aslsg THNB_WHEAT : 4- 12: ksc CkstlGrn--C ynlcr THNB_WHEAT : 31- 39: anvcr CkltsGls--C pkdfp THN_DENCL : 32- 40: aalsg CkiisGtg--C ppgyr THN_PHOLI : 32- 40: aslsg CkiisGst--C bsgwb THN_PHOTO : 16- 26: niynt CrfggGsrpvC aklsg THN_PHOTO : 32- 40: aklsg CkiisGtk--C dsgwn THN_PYRPU : 33- 41: akkcd CkiisGtt--C psdyp N 14: 10.1006 38( 17) C-x(2,3)-T-x-[ACGT] Occurences: 38(17) CRAM_CRAAB : 26- 32: tpeai CatyTgC iiipg THN1_VISAL : 3- 9: ks CcpbTtG rbiyb THN1_VISAL : 4- 9: ksc Cpb-TtG rbiyb THN1_WHEAT : 19- 25: vegks CcrsTlG rncyn THN1_WHEAT : 20- 25: egksc Crs-TlG rncyn THN2_VISAL : 3- 9: ks CcpnTtG rniyn THN2_VISAL : 4- 9: ksc Cpn-TtG rniyn THN2_WHEAT : 30- 36: vegks CcrtTlG rncyn THN2_WHEAT : 31- 36: egksc Crt-TlG rncyn THN2_WHEAT : 58- 63: stvcr Ckl-TsG lscpk THN3_HORVU : 31- 37: vegks CckaTlA rncyn THN3_HORVU : 32- 37: egksc Cka-TlA rncyn THN3_VISAL : 29- 35: vesks CcpnTtG rniyn THN3_VISAL : 30- 35: esksc Cpn-TtG rniyn THN3_VISAL : 42- 47: niyna Crl-TgA prptc THN5_HORVU : 31- 37: veaks CcknTtG rncyn THN5_HORVU : 32- 37: eaksc Ckn-TtG rncyn THN6_HORVU : 3- 9: ks CckdTlA rncyn THN6_HORVU : 4- 9: ksc Ckd-TlA rncyn THNA_HORVU : 21- 27: vegks CcrsTlG rncyn THNA_HORVU : 22- 27: egksc Crs-TlG rncyn THNB_HORVU : 30- 36: vegks CcrsTlG rncyn THNB_HORVU : 31- 36: egksc Crs-TlG rncyn THNB_HORVU : 58- 63: anacr Ckl-TsG lkcps THNB_VISAL : 9- 15: vesks CcpnTtG rniyn THNB_VISAL : 10- 15: esksc Cpn-TtG rniyn THNB_WHEAT : 3- 9: ks CcksTlG rncyn THNB_WHEAT : 4- 9: ksc Cks-TlG rncyn THNB_WHEAT : 31- 36: anvcr Ckl-TsG lscpk THN_DENCL : 3- 8: ks Ccp-TtA arnqy THN_DENCL : 3- 9: ks CcptTaA rnqyn THN_DENCL : 4- 9: ksc Cpt-TaA rnqyn THN_PHOLI : 3- 9: ks CcpsTtA rniyn THN_PHOLI : 4- 9: ksc Cps-TtA rniyn THN_PHOLI : 16- 21: niynt Crl-TgT srptc THN_PHOTO : 3- 8: ks Ccp-TtT arniy THN_PHOTO : 3- 9: ks CcptTtA rniyn THN_PHOTO : 4- 9: ksc Cpt-TtA rniyn THN_PYRPU : 3- 9: ks CcrnTwA rncyn THN_PYRPU : 4- 9: ksc Crn-TwA rncyn O 15: 10.1006 27( 17) C-x(1,2)-T-x-[ACGT] Occurences: 27(17) CRAM_CRAAB : 26- 30: tpeai Ca-TyT gciii THN1_VISAL : 4- 9: ksc CpbTtG rbiyb THN1_WHEAT : 20- 25: egksc CrsTlG rncyn THN2_VISAL : 4- 9: ksc CpnTtG rniyn THN2_WHEAT : 31- 36: egksc CrtTlG rncyn THN2_WHEAT : 52- 56: gaqkl Cs-TvC rcklt THN2_WHEAT : 58- 63: stvcr CklTsG lscpk THN3_HORVU : 32- 37: egksc CkaTlA rncyn THN3_VISAL : 30- 35: esksc CpnTtG rniyn THN3_VISAL : 42- 47: niyna CrlTgA prptc THN3_VISAL : 97- 101: aeavr Ck-TaC sdlcq THN5_HORVU : 32- 37: eaksc CknTtG rncyn THN5_HORVU : 54- 58: gsrpv Ca-TaC gckii THN6_HORVU : 4- 9: ksc CkdTlA rncyn THNA_HORVU : 22- 27: egksc CrsTlG rncyn THNB_HORVU : 31- 36: egksc CrsTlG rncyn THNB_HORVU : 58- 63: anacr CklTsG lkcps THNB_VISAL : 10- 15: esksc CpnTtG rniyn THNB_WHEAT : 4- 9: ksc CksTlG rncyn THNB_WHEAT : 31- 36: anvcr CklTsG lscpk THN_DENCL : 3- 8: ks CcpTtA arnqy THN_DENCL : 4- 8: ksc Cp-TtA arnqy THN_DENCL : 4- 9: ksc CptTaA rnqyn THN_PHOLI : 4- 9: ksc CpsTtA rniyn THN_PHOLI : 16- 21: niynt CrlTgT srptc THN_PHOTO : 3- 8: ks CcpTtT arniy THN_PHOTO : 4- 8: ksc Cp-TtT arniy THN_PHOTO : 4- 9: ksc CptTtA rniyn THN_PYRPU : 4- 9: ksc CrnTwA rncyn P 16: 9.5829 23( 17) R-x(0,2)-G-[AGQT] Occurences: 23(17) CRAM_CRAAB : 17- 21: nfnvc RlpGT peaic THN1_VISAL : 17- 20: iybtc Rf-GG gsrzv THN1_VISAL : 17- 21: iybtc RfgGG srzvc THN1_WHEAT : 33- 37: cynlc RarGA qklca THN1_WHEAT : 35- 37: nlcra R--GA qklca THN2_VISAL : 17- 20: iyntc Rf-GG gsrev THN2_VISAL : 17- 21: iyntc RfgGG srevc THN2_WHEAT : 44- 48: cynlc RsrGA qklcs THN2_WHEAT : 46- 48: nlcrs R--GA qklcs THN3_HORVU : 107- 109: mdnvf R--GQ emkfd THN3_VISAL : 43- 47: iynac RltGA prptc THN5_HORVU : 45- 49: cynac RfaGG srpvc THN5_HORVU : 107- 109: mdnvs R--GQ emkfd THN6_HORVU : 17- 21: cyntc RfaGG srpvc THNA_HORVU : 35- 39: cynlc RvrGA qklca THNA_HORVU : 37- 39: nlcrv R--GA qklca THNB_HORVU : 44- 48: cynlc RvrGA qklca THNB_HORVU : 46- 48: nlcrv R--GA qklca THNB_VISAL : 23- 26: iyntc Rl-GG gsrer THNB_VISAL : 23- 27: iyntc RlgGG srerc THNB_WHEAT : 17- 21: cynlc RarGA qklca THNB_WHEAT : 19- 21: nlcra R--GA qklca THN_DENCL : 17- 21: qynic RlpGT prpvc THN_PHOLI : 17- 21: iyntc RltGT srptc THN_PHOTO : 17- 20: iyntc Rf-GG gsrpv THN_PHOTO : 17- 21: iyntc RfgGG srpvc THN_PYRPU : 17- 21: cynvc RlpGT isrei Q 17: 8.3401 22( 17) R-x(5)-C Occurences: 22(17) CRAM_CRAAB : 10- 16: psiva RsnfnvC rlpgt THN1_VISAL : 10- 16: pbttg RbiybtC rfggg THN1_WHEAT : 26- 32: rstlg RncynlC rarga THN1_WHEAT : 35- 41: nlcra RgaqklC agvcr THN2_VISAL : 10- 16: pnttg RniyntC rfggg THN2_WHEAT : 37- 43: rttlg RncynlC rsrga THN2_WHEAT : 46- 52: nlcrs RgaqklC stvcr THN3_HORVU : 38- 44: katla RncyntC hfagg THN3_VISAL : 36- 42: pnttg RniynaC rltga THN5_HORVU : 38- 44: knttg RncynaC rfagg THN6_HORVU : 10- 16: kdtla RncyntC rfagg THNA_HORVU : 28- 34: rstlg RncynlC rvrga THNA_HORVU : 37- 43: nlcrv RgaqklC agvcr THNB_HORVU : 37- 43: rstlg RncynlC rvrga THNB_HORVU : 46- 52: nlcrv RgaqklC anacr THNB_VISAL : 16- 22: pnttg RniyntC rlggg THNB_WHEAT : 10- 16: kstlg RncynlC rarga THNB_WHEAT : 19- 25: nlcra RgaqklC anvcr THN_DENCL : 10- 16: pttaa RnqyniC rlpgt THN_PHOLI : 10- 16: pstta RniyntC rltgt THN_PHOTO : 10- 16: pttta RniyntC rfggg THN_PYRPU : 10- 16: rntwa RncynvC rlpgt R 18: 7.8401 35( 17) S-x(3,4)-C Occurences: 35(17) CRAM_CRAAB : 11- 16: sivar SnfnvC rlpgt THN1_VISAL : 22- 26: rfggg Srzv-C arisg THN1_VISAL : 36- 40: gckii Sast-C psypb THN1_WHEAT : 50- 55: crcki SsglsC pkgfp THN1_WHEAT : 51- 55: rckis Sgls-C pkgfp THN2_VISAL : 22- 26: rfggg Srev-C aslsg THN2_VISAL : 28- 32: revca Slsg-C kiisa THN2_VISAL : 36- 40: gckii Sast-C psypd THN2_WHEAT : 53- 58: aqklc StvcrC kltsg THN2_WHEAT : 62- 66: rcklt Sgls-C pkgfp THN3_HORVU : 9- 13: sksik Svvi-C vlilg THN3_HORVU : 50- 54: hfagg Srpv-C agacr THN3_HORVU : 64- 68: rckii Sgpk-C psdyp THN3_VISAL : 26- 30: vsqve Sksc-C pnttg THN3_VISAL : 62- 66: gckii Sgst-C psdyp THN5_HORVU : 9- 13: nksik Svvi-C vlilg THN5_HORVU : 50- 54: rfagg Srpv-C atacg THN5_HORVU : 64- 68: gckii Sgpt-C prdyp THN6_HORVU : 22- 26: rfagg Srpv-C agacr THN6_HORVU : 36- 40: rckii Sgpk-C psdyp THNA_HORVU : 53- 57: rcklt Ssgk-C ptgfp THNB_HORVU : 62- 66: rcklt Sglk-C pssfp THNB_VISAL : 6- 10: frnve Sksc-C pnttg THNB_VISAL : 28- 32: rlggg Srer-C aslsg THNB_VISAL : 34- 38: rerca Slsg-C kiisa THNB_VISAL : 42- 46: gckii Sast-C psdyp THNB_WHEAT : 35- 39: rcklt Sgls-C pkdfp THN_DENCL : 36- 40: gckii Sgtg-C ppgyr THN_PHOLI : 22- 26: rltgt Srpt-C aslsg THN_PHOLI : 28- 32: rptca Slsg-C kiisg THN_PHOLI : 36- 40: gckii Sgst-C bsgwb THN_PHOTO : 22- 26: rfggg Srpv-C aklsg THN_PHOTO : 36- 40: gckii Sgtk-C dsgwn THN_PYRPU : 23- 27: lpgti Srei-C akkcd THN_PYRPU : 37- 41: dckii Sgtt-C psdyp S 19: 7.8401 39( 17) C-x(2,3)-S Occurences: 39(17) CRAM_CRAAB : 3- 6: tt Ccp-S ivars THN1_VISAL : 26- 30: gsrzv CariS gckii THN1_VISAL : 32- 36: arisg CkiiS astcp THN1_WHEAT : 19- 22: vegks Ccr-S tlgrn THN1_WHEAT : 47- 50: agvcr Cki-S sglsc THN1_WHEAT : 47- 51: agvcr CkisS glscp THN1_WHEAT : 81- 84: ycnlg Crs-S vcdym THN2_VISAL : 26- 30: gsrev CaslS gckii THN2_VISAL : 32- 36: aslsg CkiiS astcp THN2_WHEAT : 58- 62: stvcr CkltS glscp THN2_WHEAT : 92- 95: ycnlg Crs-S vcdym THN3_HORVU : 60- 64: agacr CkiiS gpkcp THN3_HORVU : 94- 97: yctig Crn-S vcdnm THN3_VISAL : 52- 56: aprpt CaklS gckii THN3_VISAL : 58- 62: aklsg CkiiS gstcp THN3_VISAL : 79- 82: yctlg Ces-S qcatn THN3_VISAL : 84- 88: cessq CatnS ngdae THN5_HORVU : 60- 64: atacg CkiiS gptcp THN5_HORVU : 94- 97: yctig Crt-S vcdnm THN6_HORVU : 32- 36: agacr CkiiS gpkcp THNA_HORVU : 21- 24: vegks Ccr-S tlgrn THNA_HORVU : 49- 53: agvcr CkltS sgkcp THNA_HORVU : 83- 86: ycnlg Cra-S mcdym THNB_HORVU : 30- 33: vegks Ccr-S tlgrn THNB_HORVU : 58- 62: anacr CkltS glkcp THNB_HORVU : 66- 69: tsglk Cps-S fpkla THNB_HORVU : 92- 95: ycnlg Cra-S mcdym THNB_VISAL : 32- 36: gsrer CaslS gckii THNB_VISAL : 38- 42: aslsg CkiiS astcp THNB_VISAL : 59- 62: yctlg Cqs-S kcasi THNB_WHEAT : 3- 6: ks Cck-S tlgrn THNB_WHEAT : 31- 35: anvcr CkltS glscp THN_DENCL : 26- 30: tprpv CaalS gckii THN_DENCL : 32- 36: aalsg CkiiS gtgcp THN_PHOLI : 3- 6: ks Ccp-S ttarn THN_PHOLI : 26- 30: tsrpt CaslS gckii THN_PHOLI : 32- 36: aslsg CkiiS gstcb THN_PHOTO : 26- 30: gsrpv CaklS gckii THN_PHOTO : 32- 36: aklsg CkiiS gtkcd THN_PYRPU : 33- 37: akkcd CkiiS gttcp T 20: 7.3401 44( 17) G-x(2,4)-C Occurences: 44(17) CRAM_CRAAB : 37- 40: ciiip Gat--C pgdya THN1_VISAL : 21- 26: crfgg GsrzvC arisg THN1_WHEAT : 16- 19: qlqve Gks--C crstl THN1_WHEAT : 16- 20: qlqve Gksc-C rstlg THN1_WHEAT : 25- 28: crstl Grn--C ynlcr THN1_WHEAT : 36- 41: lcrar GaqklC agvcr THN1_WHEAT : 43- 47: qklca Gvcr-C kissg THN1_WHEAT : 52- 55: ckiss Gls--C pkgfp THN2_VISAL : 21- 26: crfgg GsrevC aslsg THN2_WHEAT : 8- 12: skglk Gvmv-C llilg THN2_WHEAT : 27- 30: qvqve Gks--C crttl THN2_WHEAT : 27- 31: qvqve Gksc-C rttlg THN2_WHEAT : 36- 39: crttl Grn--C ynlcr THN2_WHEAT : 47- 52: lcrsr GaqklC stvcr THN2_WHEAT : 63- 66: cklts Gls--C pkgfp THN2_WHEAT : 118- 121: yvenc Gda--C vnfcn THN3_HORVU : 28- 31: qvqve Gks--C ckatl THN3_HORVU : 28- 32: qvqve Gksc-C katla THN3_HORVU : 49- 54: chfag GsrpvC agacr THN3_HORVU : 56- 60: rpvca Gacr-C kiisg THN3_HORVU : 65- 68: ckiis Gpk--C psdyp THN3_VISAL : 63- 66: ckiis Gst--C psdyp THN5_HORVU : 37- 40: ckntt Grn--C ynacr THN5_HORVU : 49- 54: crfag GsrpvC atacg THN5_HORVU : 65- 68: ckiis Gpt--C prdyp THN6_HORVU : 21- 26: crfag GsrpvC agacr THN6_HORVU : 28- 32: rpvca Gacr-C kiisg THN6_HORVU : 37- 40: ckiis Gpk--C psdyp THNA_HORVU : 18- 21: qvqve Gks--C crstl THNA_HORVU : 18- 22: qvqve Gksc-C rstlg THNA_HORVU : 27- 30: crstl Grn--C ynlcr THNA_HORVU : 38- 43: lcrvr GaqklC agvcr THNA_HORVU : 45- 49: qklca Gvcr-C kltss THNA_HORVU : 109- 112: ylenc Gda--C vnfcn THNB_HORVU : 8- 12: skglk Gvmv-C llilg THNB_HORVU : 27- 30: hvqve Gks--C crstl THNB_HORVU : 27- 31: hvqve Gksc-C rstlg THNB_HORVU : 36- 39: crstl Grn--C ynlcr THNB_HORVU : 47- 52: lcrvr GaqklC anacr THNB_HORVU : 63- 66: cklts Glk--C pssfp THNB_VISAL : 27- 32: crlgg GsrerC aslsg THNB_WHEAT : 9- 12: ckstl Grn--C ynlcr THNB_WHEAT : 20- 25: lcrar GaqklC anvcr THNB_WHEAT : 36- 39: cklts Gls--C pkdfp THN_DENCL : 37- 40: ckiis Gtg--C ppgyr THN_PHOLI : 37- 40: ckiis Gst--C bsgwb THN_PHOTO : 21- 26: crfgg GsrpvC aklsg THN_PHOTO : 37- 40: ckiis Gtk--C dsgwn THN_PYRPU : 38- 41: ckiis Gtt--C psdyp Number of patterns evaluated by Pratt:69 Total running time: 0 seconds