------------------------------------------------------------ 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 6 sequences from file RNA_POL_D_30KD PATTERN CONSERVATION: CM: min Nr of Seqs to Match 6 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 RNA_POL_D_30KD.pratt2 OP: PROSITE Pattern Format on ON: max number patterns 20 OA: max number Alignments 20 M: Print Patterns in sequences off Sequence lengths: CNJC_TETTH 310 RPB3_HUMAN 275 RPB3_SCHPO 296 RPB3_YEAST 318 RPC5_YEAST 335 RPOD_SULAC 264 Pratt run started at Thu Feb 6 21:06:56 1997 Best Patterns before refinement: fitness hits(seqs) Pattern 1: 39.7005 6( 6) A-x(3)-V-x(4)-N-x(5)-D-E-x(2)-A-H-R-x(0,2)-L-x(1,3)-P 2: 35.5305 6( 6) V-x(4)-N-x(5)-D-E-x(2)-A-H-R-x(0,2)-L-x(1,3)-P 3: 31.3604 6( 6) N-x(5)-D-E-x(2)-A-H-R-x(0,2)-L-x(1,3)-P 4: 27.6904 7( 6) N-x(4,5)-D-E-x(2)-A-H-R-x(0,2)-L 5: 27.1904 6( 6) D-E-x(2)-A-H-R-x(0,2)-L-x(1,3)-P 6: 23.0203 6( 6) E-x(2)-A-H-R-x(0,2)-L-x(1,3)-P 7: 18.8503 6( 6) A-H-R-x(0,2)-L-x(1,3)-P 8: 16.6802 6( 6) G-x(4)-H-x-K-x(2)-P 9: 16.1802 6( 6) F-x(4)-E-x(2)-G-x(2,3)-P 10: 16.1802 7( 6) D-E-x(3)-H-x(0,1)-R 11: 15.6802 10( 6) G-x(2,4)-H-x-K-x(2)-P 12: 15.6802 7( 6) L-x(3)-Q-x(3)-L-x(1,3)-A 13: 15.6802 6( 6) L-x(1,2)-E-x(2)-A-x(4,5)-L 14: 15.6802 6( 6) N-x(2)-R-x(0,1)-R-x(3,4)-E 15: 15.1802 6( 6) E-x(0,2)-A-x(1,2)-R-x-G 16: 15.1802 8( 6) L-x(3,4)-Q-x(3)-L-x(1,3)-A 17: 15.1802 6( 6) R-x(0,1)-L-x(3)-P-x(2,4)-S 18: 15.1802 7( 6) S-x(2,3)-D-x(3)-A-x(1,3)-R 19: 15.1802 6( 6) L-x(0,2)-R-x-G-x(2,3)-L 20: 14.6802 6( 6) F-x(3)-N-x(2,4)-L-x(1,3)-N Best Patterns (after refinement phase): fitness hits(seqs) Pattern A 1: 66.0131 6( 6) A-[AIV]-[DEH]-x-V-x-[FIV]-x(2)-N-[NST]-[ST]-x-[ILM]-x-D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] B 2: 56.5731 6( 6) V-x-[FIV]-x(2)-N-[NST]-[ST]-x-[ILM]-x-D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] C 3: 53.9985 6( 6) N-[AGS]-[FIL]-R-x(0,1)-R-x(3,4)-E-x(3)-[ILV]-[AE]-x(3)-[SV]-x(4)-[NS]-x(3)-[ILMV]-x-[DV]-x(2)-[ILV]-[AD]-[EH]-x(3)-[ILM]-x-[NP] D 4: 49.7696 6( 6) N-[NST]-[ST]-x-[ILM]-x-D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] E 5: 47.9945 6( 6) D-E-x-[IL]-A-H-R-[IL]-[AG]-[LM]-[IV]-P-[FL]-x-[SV] F 6: 41.7755 6( 6) G-x-[AG]-x(2)-H-x-K-[FWY]-[GNS]-P-[ATV]-[ACS]-x(4)-[ERS]-x(2)-P-x(3)-[FILV]-x(2)-[ENPT] G 7: 39.0246 7( 6) N-x(4,5)-D-E-x-[IL]-A-H-R-x(0,2)-L-[GIV]-x-[FIL]-x(2)-[ADQ] H 8: 37.6054 10( 6) G-x(2,4)-H-x-K-[FWY]-[GNS]-P-[ATV]-[ACS]-x(4)-[ERS]-x(2)-P-x(3)-[FILV]-x(2)-[ENPT] I 9: 36.9160 6( 6) D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] J 10: 32.8878 7( 6) S-x(2,3)-D-x(2)-[ILM]-A-x(1,3)-R-x-[AGV]-[LM]-[IV]-[AP]-x(3)-[ADST] K 11: 32.7460 6( 6) E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] L 12: 29.5641 6( 6) L-x(3)-Q-[EK]-x(2)-L-x(1,3)-A-x(4)-[AGV]-x-[EG]-x-[ADEN]-x(4)-[AST] M 13: 29.0641 7( 6) L-x(3,4)-Q-[EK]-x(2)-L-x(1,3)-A-x(4)-[AGV]-x-[EG]-x-[ADEN]-x(4)-[AST] N 14: 26.8663 6( 6) F-x(3)-[IV]-E-[ST]-[ACTV]-G-x(2,3)-P-x(3)-[FILMV] O 15: 25.2893 6( 6) A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] P 16: 25.1628 6( 6) L-x(1,2)-E-x-[FIL]-A-x(4,5)-L-x(4)-[NPS]-x(2)-[AILV]-x-[ADENQ] Q 17: 21.1354 6( 6) E-x(0,2)-A-x(1,2)-R-[IL]-G-x-[GIV] R 18: 20.6509 6( 6) R-x(0,1)-L-x-[FLM]-x-P-x(2,4)-S-x(4)-[DEQ] S 19: 17.8317 6( 6) L-x(0,2)-R-x-G-x(2,3)-L-[DKR] T 20: 17.2791 6( 6) F-x(2)-[EST]-N-x(2,4)-L-x(1,3)-N Best patterns with alignements: fitness hits(seqs) Pattern A 1: 66.0131 6( 6) A-[AIV]-[DEH]-x-V-x-[FIV]-x(2)-N-[NST]-[ST]-x-[ILM]-x-D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 43- 72: eieti AIHnVkVyeNTSsLpDEyIAHRlgLi--PLnS akvdd CNJC_TETTH : 43- 72: eieti AIHnVkVyeNTSsLpDEyIAHR--LgliPLnS akvdd RPB3_HUMAN : 46- 75: evpii AIDwVqIdaNSSvLhDEfIAHRlgLi--PLiS ddivd RPB3_HUMAN : 46- 75: evpii AIDwVqIdaNSSvLhDEfIAHR--LgliPLiS ddivd RPB3_SCHPO : 44- 73: eiptv AIDlVeInvNTSvMpDEfLAHR--LgmiPLdS snide RPB3_YEAST : 45- 74: eiptl AIDsVeVetNTTvLaDEfIAHRlgLi--PLqS mdieq RPB3_YEAST : 45- 74: eiptl AIDsVeVetNTTvLaDEfIAHR--LgliPLqS mdieq RPC5_YEAST : 79- 108: evpsv AAEyVyFfnNTSvIqDEvLAHRigLv--PLkV dpdml RPOD_SULAC : 40- 69: yvpvm AVDeVyFieNNSpLyDEiLAHRlaLv--PFvS deale RPOD_SULAC : 40- 69: yvpvm AVDeVyFieNNSpLyDEiLAHR--LalvPFvS deale B 2: 56.5731 6( 6) V-x-[FIV]-x(2)-N-[NST]-[ST]-x-[ILM]-x-D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 47- 72: iaihn VkVyeNTSsLpDEyIAHRlgLi--PLnS akvdd CNJC_TETTH : 47- 72: iaihn VkVyeNTSsLpDEyIAHR--LgliPLnS akvdd RPB3_HUMAN : 50- 75: iaidw VqIdaNSSvLhDEfIAHRlgLi--PLiS ddivd RPB3_HUMAN : 50- 75: iaidw VqIdaNSSvLhDEfIAHR--LgliPLiS ddivd RPB3_SCHPO : 48- 73: vaidl VeInvNTSvMpDEfLAHR--LgmiPLdS snide RPB3_YEAST : 49- 74: laids VeVetNTTvLaDEfIAHRlgLi--PLqS mdieq RPB3_YEAST : 49- 74: laids VeVetNTTvLaDEfIAHR--LgliPLqS mdieq RPC5_YEAST : 83- 108: vaaey VyFfnNTSvIqDEvLAHRigLv--PLkV dpdml RPOD_SULAC : 44- 69: mavde VyFieNNSpLyDEiLAHRlaLv--PFvS deale RPOD_SULAC : 44- 69: mavde VyFieNNSpLyDEiLAHR--LalvPFvS deale C 3: 53.9985 6( 6) N-[AGS]-[FIL]-R-x(0,1)-R-x(3,4)-E-x(3)-[ILV]-[AE]-x(3)-[SV]-x(4)-[NS]-x(3)-[ILMV]-x-[DV]-x(2)-[ILV]-[AD]-[EH]-x(3)-[ILM]-x-[NP] Occurences: 6(6) CNJC_TETTH : 29- 69: disla NSLR-RillaEietIAihnVkvyeNtssLpDeyIAHrlgLiP lnsak RPB3_HUMAN : 32- 72: dlava NSIR-RvfiaEvpiIAidwVqidaNssvLhDefIAHrlgLiP lisdd RPB3_SCHPO : 30- 70: slava NSLR-RvvlaEiptVAidlVeinvNtsvMpDefLAHrlgMiP ldssn RPB3_YEAST : 31- 71: dlama NSLR-RvmiaEiptLAidsVevetNttvLaDefIAHrlgLiP lqsmd RPC5_YEAST : 65- 105: dtsia NAFR-RimisEvpsVAaeyVyffnNtsvIqDevLAHrigLvP lkvdp RPOD_SULAC : 9- 49: slier NGLRlRlvl-EnypLEfvnSirraSilyVpVmaVDEvyfIeN nsply D 4: 49.7696 6( 6) N-[NST]-[ST]-x-[ILM]-x-D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 52- 72: vkvye NTSsLpDEyIAHRlgLi--PLnS akvdd CNJC_TETTH : 52- 72: vkvye NTSsLpDEyIAHR--LgliPLnS akvdd RPB3_HUMAN : 55- 75: vqida NSSvLhDEfIAHRlgLi--PLiS ddivd RPB3_HUMAN : 55- 75: vqida NSSvLhDEfIAHR--LgliPLiS ddivd RPB3_SCHPO : 53- 73: veinv NTSvMpDEfLAHR--LgmiPLdS snide RPB3_YEAST : 54- 74: vevet NTTvLaDEfIAHRlgLi--PLqS mdieq RPB3_YEAST : 54- 74: vevet NTTvLaDEfIAHR--LgliPLqS mdieq RPC5_YEAST : 88- 108: vyffn NTSvIqDEvLAHRigLv--PLkV dpdml RPOD_SULAC : 49- 69: vyfie NNSpLyDEiLAHRlaLv--PFvS deale RPOD_SULAC : 49- 69: vyfie NNSpLyDEiLAHR--LalvPFvS deale E 5: 47.9945 6( 6) D-E-x-[IL]-A-H-R-[IL]-[AG]-[LM]-[IV]-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 58- 72: tsslp DEyIAHRLGLIPLnS akvdd RPB3_HUMAN : 61- 75: ssvlh DEfIAHRLGLIPLiS ddivd RPB3_SCHPO : 59- 73: tsvmp DEfLAHRLGMIPLdS snide RPB3_YEAST : 60- 74: ttvla DEfIAHRLGLIPLqS mdieq RPC5_YEAST : 94- 108: tsviq DEvLAHRIGLVPLkV dpdml RPOD_SULAC : 55- 69: nsply DEiLAHRLALVPFvS deale F 6: 41.7755 6( 6) G-x-[AG]-x(2)-H-x-K-[FWY]-[GNS]-P-[ATV]-[ACS]-x(4)-[ERS]-x(2)-P-x(3)-[FILV]-x(2)-[ENPT] Occurences: 6(6) CNJC_TETTH : 169- 196: ceaqk GiGkmHsKWNPVCistfSvePeiiFdqE iqnld RPB3_HUMAN : 168- 195: ayakk GfGkeHaKWNPTAgvafEydPdnaLrtT vypkp RPB3_SCHPO : 163- 190: ciakk GiAkeHaKWSPTSavafEydPwnkLqhT dywfe RPB3_YEAST : 162- 189: cvakk GiAkeHaKWGPAAaiefEydPwnkLkhT dywye RPC5_YEAST : 211- 238: ahcil GiGgdHaKFSPVStasyRllPqinIlqP ikges RPOD_SULAC : 148- 175: arlrl GyGkeHiKYSPVSvsivRyyPkvtVlgN cekav G 7: 39.0246 7( 6) N-x(4,5)-D-E-x-[IL]-A-H-R-x(0,2)-L-[GIV]-x-[FIL]-x(2)-[ADQ] Occurences: 7(6) CNJC_TETTH : 52- 73: vkvye NtsslpDEyIAHRlgLIpLnsA kvddy RPB3_HUMAN : 55- 76: vqida NssvlhDEfIAHRlgLIpLisD divdk RPB3_SCHPO : 53- 72: veinv NtsvmpDEfLAHR--LGmIplD ssnid RPB3_YEAST : 54- 73: vevet NttvlaDEfIAHR--LGlIplQ smdie RPC5_YEAST : 88- 109: vyffn NtsviqDEvLAHRigLVpLkvD pdmlt RPOD_SULAC : 49- 70: vyfie NnsplyDEiLAHRlaLVpFvsD ealeh RPOD_SULAC : 50- 70: yfien Nsply-DEiLAHRlaLVpFvsD ealeh H 8: 37.6054 10( 6) G-x(2,4)-H-x-K-[FWY]-[GNS]-P-[ATV]-[ACS]-x(4)-[ERS]-x(2)-P-x(3)-[FILV]-x(2)-[ENPT] Occurences: 10(6) CNJC_TETTH : 169- 196: ceaqk GigkmHsKWNPVCistfSvePeiiFdqE iqnld CNJC_TETTH : 171- 196: aqkgi Gkm--HsKWNPVCistfSvePeiiFdqE iqnld RPB3_HUMAN : 168- 195: ayakk GfgkeHaKWNPTAgvafEydPdnaLrtT vypkp RPB3_HUMAN : 170- 195: akkgf Gke--HaKWNPTAgvafEydPdnaLrtT vypkp RPB3_SCHPO : 163- 190: ciakk GiakeHaKWSPTSavafEydPwnkLqhT dywfe RPB3_YEAST : 162- 189: cvakk GiakeHaKWGPAAaiefEydPwnkLkhT dywye RPC5_YEAST : 211- 238: ahcil GiggdHaKFSPVStasyRllPqinIlqP ikges RPC5_YEAST : 213- 238: cilgi Ggd--HaKFSPVStasyRllPqinIlqP ikges RPOD_SULAC : 148- 175: arlrl GygkeHiKYSPVSvsivRyyPkvtVlgN cekav RPOD_SULAC : 150- 175: lrlgy Gke--HiKYSPVSvsivRyyPkvtVlgN cekav I 9: 36.9160 6( 6) D-E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 58- 72: tsslp DEyIAHRlgLi--PLnS akvdd CNJC_TETTH : 58- 72: tsslp DEyIAHR--LgliPLnS akvdd RPB3_HUMAN : 61- 75: ssvlh DEfIAHRlgLi--PLiS ddivd RPB3_HUMAN : 61- 75: ssvlh DEfIAHR--LgliPLiS ddivd RPB3_SCHPO : 59- 73: tsvmp DEfLAHR--LgmiPLdS snide RPB3_YEAST : 60- 74: ttvla DEfIAHRlgLi--PLqS mdieq RPB3_YEAST : 60- 74: ttvla DEfIAHR--LgliPLqS mdieq RPC5_YEAST : 94- 108: tsviq DEvLAHRigLv--PLkV dpdml RPOD_SULAC : 55- 69: nsply DEiLAHRlaLv--PFvS deale RPOD_SULAC : 55- 69: nsply DEiLAHR--LalvPFvS deale J 10: 32.8878 7( 6) S-x(2,3)-D-x(2)-[ILM]-A-x(1,3)-R-x-[AGV]-[LM]-[IV]-[AP]-x(3)-[ADST] Occurences: 7(6) CNJC_TETTH : 54- 73: vyent SslpDeyIAh--RlGLIPlnsA kvddy CNJC_TETTH : 55- 73: yents Slp-DeyIAh--RlGLIPlnsA kvddy RPB3_HUMAN : 57- 76: idans SvlhDefIAh--RlGLIPlisD divdk RPB3_SCHPO : 55- 74: invnt SvmpDefLAh--RlGMIPldsS nidep RPB3_YEAST : 23- 43: vdfil Snv-DlaMAnslRrVMIAeipT laids RPC5_YEAST : 90- 109: ffnnt SviqDevLAh--RiGLVPlkvD pdmlt RPOD_SULAC : 51- 70: fienn SplyDeiLAh--RlALVPfvsD ealeh K 11: 32.7460 6( 6) E-x-[IL]-A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 59- 72: sslpd EyIAHRlgLi--PLnS akvdd CNJC_TETTH : 59- 72: sslpd EyIAHR--LgliPLnS akvdd RPB3_HUMAN : 62- 75: svlhd EfIAHRlgLi--PLiS ddivd RPB3_HUMAN : 62- 75: svlhd EfIAHR--LgliPLiS ddivd RPB3_SCHPO : 60- 73: svmpd EfLAHR--LgmiPLdS snide RPB3_YEAST : 61- 74: tvlad EfIAHRlgLi--PLqS mdieq RPB3_YEAST : 61- 74: tvlad EfIAHR--LgliPLqS mdieq RPC5_YEAST : 95- 108: sviqd EvLAHRigLv--PLkV dpdml RPOD_SULAC : 56- 69: splyd EiLAHRlaLv--PFvS deale RPOD_SULAC : 56- 69: splyd EiLAHR--LalvPFvS deale L 12: 29.5641 6( 6) L-x(3)-Q-[EK]-x(2)-L-x(1,3)-A-x(4)-[AGV]-x-[EG]-x-[ADEN]-x(4)-[AST] Occurences: 6(6) CNJC_TETTH : 200- 225: qeiqn LdieQKkaLvn-AcptkVfGiNphtnT levqd RPB3_HUMAN : 153- 179: ilivk LrkgQElrLrayAkkgfGkEhAkwnpT agvaf RPB3_SCHPO : 148- 174: plick LrkeQEisLrciAkkgiAkEhAkwspT savaf RPB3_YEAST : 147- 173: vlick LrkgQElkLtcvAkkgiAkEhAkwgpA aaief RPC5_YEAST : 196- 220: illak LrpgQEisLk--AhcilGiGgDhakfS pvsta RPOD_SULAC : 133- 157: ipivl LgskQKisLe--ArlrlGyGkEhikyS pvsvs M 13: 29.0641 7( 6) L-x(3,4)-Q-[EK]-x(2)-L-x(1,3)-A-x(4)-[AGV]-x-[EG]-x-[ADEN]-x(4)-[AST] Occurences: 7(6) CNJC_TETTH : 200- 225: qeiqn Ldie-QKkaLvn-AcptkVfGiNphtnT levqd RPB3_HUMAN : 153- 179: ilivk Lrkg-QElrLrayAkkgfGkEhAkwnpT agvaf RPB3_SCHPO : 148- 174: plick Lrke-QEisLrciAkkgiAkEhAkwspT savaf RPB3_YEAST : 147- 173: vlick Lrkg-QElkLtcvAkkgiAkEhAkwgpA aaief RPC5_YEAST : 196- 220: illak Lrpg-QEisLk--AhcilGiGgDhakfS pvsta RPOD_SULAC : 132- 157: aipiv LlgskQKisLe--ArlrlGyGkEhikyS pvsvs RPOD_SULAC : 133- 157: ipivl Lgsk-QKisLe--ArlrlGyGkEhikyS pvsvs N 14: 26.8663 6( 6) F-x(3)-[IV]-E-[ST]-[ACTV]-G-x(2,3)-P-x(3)-[FILMV] Occurences: 6(6) CNJC_TETTH : 263- 279: hkkdk FffkVETTGvmkPvevL rrgfs RPB3_HUMAN : 229- 245: gkper FyynVESCGslrPetiV lsals RPB3_SCHPO : 229- 244: eeprr FymdVESVGsi-PpneI mvqgl RPB3_SCHPO : 229- 245: eeprr FymdVESVGsipPneiM vqglr RPB3_YEAST : 228- 243: aqadt FymnVESVGsi-PvdqV vvrgi RPC5_YEAST : 298- 314: rvrnh FifnVESAGamtPeeiF fksvr RPOD_SULAC : 226- 242: svenk FileIESVGslkPeriL ieask O 15: 25.2893 6( 6) A-H-R-x(0,2)-L-x(1,3)-P-[FL]-x-[SV] Occurences: 6(6) CNJC_TETTH : 62- 72: pdeyi AHRlgLi--PLnS akvdd CNJC_TETTH : 62- 72: pdeyi AHR--LgliPLnS akvdd RPB3_HUMAN : 65- 75: hdefi AHRlgLi--PLiS ddivd RPB3_HUMAN : 65- 75: hdefi AHR--LgliPLiS ddivd RPB3_SCHPO : 63- 73: pdefl AHR--LgmiPLdS snide RPB3_YEAST : 64- 74: adefi AHRlgLi--PLqS mdieq RPB3_YEAST : 64- 74: adefi AHR--LgliPLqS mdieq RPC5_YEAST : 98- 108: qdevl AHRigLv--PLkV dpdml RPOD_SULAC : 59- 69: ydeil AHRlaLv--PFvS deale RPOD_SULAC : 59- 69: ydeil AHR--LalvPFvS deale P 16: 25.1628 6( 6) L-x(1,2)-E-x-[FIL]-A-x(4,5)-L-x(4)-[NPS]-x(2)-[AILV]-x-[ADENQ] Occurences: 6(6) CNJC_TETTH : 56- 77: entss LpdEyIAhrlg-LiplnSakVdD ynyiw RPB3_HUMAN : 59- 80: anssv LhdEfIAhrlg-LipliSddIvD klqys RPB3_SCHPO : 252- 273: qglri Lq-EkLAvlvrdLdeeqPtqLsA nelnm RPB3_YEAST : 58- 79: tnttv LadEfIAhrlg-LiplqSmdIeQ leysr RPC5_YEAST : 280- 301: vsrev LryEeFAdkvk-LgrvrNhfIfN vesag RPOD_SULAC : 53- 74: ennsp LydEiLAhrla-LvpfvSdeAlE hyrpp Q 17: 21.1354 6( 6) E-x(0,2)-A-x(1,2)-R-[IL]-G-x-[GIV] Occurences: 6(6) CNJC_TETTH : 59- 68: sslpd EyiAh-RLGlI plnsa RPB3_HUMAN : 62- 71: svlhd EfiAh-RLGlI plisd RPB3_SCHPO : 60- 69: svmpd EflAh-RLGmI pldss RPB3_YEAST : 61- 70: tvlad EfiAh-RLGlI plqsm RPC5_YEAST : 95- 104: sviqd EvlAh-RIGlV plkvd RPOD_SULAC : 142- 150: qkisl E--ArlRLGyG kehik R 18: 20.6509 6( 6) R-x(0,1)-L-x-[FLM]-x-P-x(2,4)-S-x(4)-[DEQ] Occurences: 6(6) CNJC_TETTH : 64- 77: eyiah R-LgLiPln--SakvdD ynyiw RPB3_HUMAN : 67- 80: efiah R-LgLiPli--SddivD klqys RPB3_SCHPO : 65- 78: eflah R-LgMiPld--SsnidE pppvg RPB3_YEAST : 66- 79: efiah R-LgLiPlq--SmdieQ leysr RPC5_YEAST : 165- 181: ahvya RdLkFePqgrqSttfaD cpvvp RPOD_SULAC : 61- 74: eilah R-LaLvPfv--SdealE hyrpp S 19: 17.8317 6( 6) L-x(0,2)-R-x-G-x(2,3)-L-[DKR] Occurences: 6(6) CNJC_TETTH : 279- 287: kpvev L--RrGfstLR qkldf RPB3_HUMAN : 153- 160: ilivk L--RkGqe-LR lraya RPB3_SCHPO : 62- 72: mpdef LahRlGmipLD ssnid RPB3_YEAST : 147- 154: vlick L--RkGqe-LK ltcva RPC5_YEAST : 97- 107: iqdev LahRiGlvpLK vdpdm RPOD_SULAC : 5- 14: mpis LieRnGlr-LR lvlen T 20: 17.2791 6( 6) F-x(2)-[EST]-N-x(2,4)-L-x(1,3)-N Occurences: 6(6) CNJC_TETTH : 18- 29: efkce FtlENcdisLa--N slrri RPB3_HUMAN : 21- 32: denvk FiiENtd--LavaN sirrv RPB3_SCHPO : 19- 30: knsvd FvlTNts--LavaN slrrv RPB3_YEAST : 20- 31: kdnvd FilSNvd--LamaN slrrv RPC5_YEAST : 126- 137: pddek FtdENtiv-Lsl-N vkctr RPOD_SULAC : 188- 199: cpegv FamENnk--LvvkN elsci Number of patterns evaluated by Pratt:5135 Total running time: 2 seconds