Документ взят из кэша поисковой машины. Адрес оригинального документа : http://mouse.belozersky.msu.ru/npidb/data/pdb_new/hmm/3aoi.pdb2.pdb.hmm.txt Дата изменения: Thu May 16 22:58:17 2013 Дата индексирования: Fri Feb 28 21:30:58 2014 Кодировка:

# pfam_scan.pl, run at Thu May 16 22:58:13 2013
#
# Copyright (c) 2009 Genome Research Ltd
# Freely distributed under the GNU
# General Public License
#
# Authors: Jaina Mistry (jm14@sanger.ac.uk), John Tate (jt6@sanger.ac.uk),
# Rob Finn (rdf@sanger.ac.uk)
#
# This is free software; you can redistribute it and/or modify it under
# the terms of the GNU General Public License as published by the Free Software
# Foundation; either version 2 of the License, or (at your option) any later version.
# This program is distributed in the hope that it will be useful, but WITHOUT
# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
#
# You should have received a copy of the GNU General Public License along with
# this program. If not, see .
# = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
# query sequence file: /data/npidb/pdb/pdb_new/fasta/3aoi.pdb2.pdb.fas
# searching against: /mnt/databanks/pfamdata/Pfam-A.hmm, with cut off -E 0.001 --domE 0.001
# resolve clan overlaps: on
# predict active sites: off
# = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
#
#

3aoi_F 19 216 19 217 PF01193.19 RNA_pol_L Domain 1 65 66 79.5 6.8e-23 1 CL0509
#HMM igpflegqgitlaNaLRrtLlselpglaita.....................................................................................................................................kpdkekiileiwtngsitpkealkkAakilidll
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....................................................................................................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF++p+++g+g+tl+N LRr+Lls++pg+a+t+ ++d +k++l+iwt+gs+tp eal +A++il+++l
#PP 69******************************************************************************************************************************************999999999999999998888887779****************************998
#SEQ LEPLERGFGVTLGNPLRRILLSSIPGTAVTSvyiedvlhefstipgvkedvveiilnlkelvvrflnpslqtvtlllkaegpkevkardflpvadveimnpdlhiatleeggrlnmevrvdrgvgyvpaekhgikdrinaipvdavfspvrrvafqvedtrlgqRTDLDKLTLRIWTDGSVTPLEALNQAVEILREHL
#CS EEEEEESS-HHHHHHHHHHHHTSSTTEEEEE.....................................................................................................................................THEEEEEEEEEEESSSS-HHHHHHHHHHHHHHHH
3aoi_F 53 148 46 174 PF01000.21 RNA_pol_A_bac Domain 13 110 112 89.5 1.5e-25 1 No_clan
#HMM EvvaHrlgliplvsedvleillnlkelv..eeeeegeeeksvelkLnvkgpgevtagdlkledadveivnpdilIakLrkgqeleleakvkkGiGkehak
#MATCH E v+H++++ip+v+edv+ei+lnlkelv + + + ++v+l L+++gp+ev a+d+ advei+npd++Ia+L++g +l++e++v +G+G+++a+
#PP 459************************9653...66777789*******************.8***********************************97
#SEQ EDVLHEFSTIPGVKEDVVEIILNLKELVvrF---LNPSLQTVTLLLKAEGPKEVKARDFLP-VADVEIMNPDLHIATLEEGGRLNMEVRVDRGVGYVPAE
#CS HHHHHHHHHSTBECTTHHHHCHCCCTT-..ESSSSSSTTTEEEEEEEEBSSSSEEGGGCEESSTTSCCSSTCSEEEEEESS-BEEEEEEEEEECTTTCCT
3aoi_G 19 216 19 217 PF01193.19 RNA_pol_L Domain 1 65 66 79.5 7e-23 1 CL0509
#HMM igpflegqgitlaNaLRrtLlselpglaita.....................................................................................................................................kpdkekiileiwtngsitpkealkkAakilidll
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....................................................................................................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF++p+++g+g+tl+N LRr+Lls++pg+a+t+ ++d +k++l+iwt+gs+tp eal +A++il+++l
#PP 69******************************************************************************************************************************************999999999999999998888887779****************************998
#SEQ LEPLERGFGVTLGNPLRRILLSSIPGTAVTSvyiedvlhefstipgvkedvveiilnlkelvvrflnpslqtvtlllkaegpkevkardflpvadveimnpdlhiatleeggrlnmevrvdrgvgyvpaekhgikdrinaipvdavfspvrrvafqvedtrlgqRTDLDKLTLRIWTDGSVTPLEALNQAVEILREHL
#CS EEEEEESS-HHHHHHHHHHHHTSSTTEEEEE.....................................................................................................................................THEEEEEEEEEEESSSS-HHHHHHHHHHHHHHHH
3aoi_G 53 148 46 174 PF01000.21 RNA_pol_A_bac Domain 13 110 112 89.5 1.5e-25 1 No_clan
#HMM EvvaHrlgliplvsedvleillnlkelv..eeeeegeeeksvelkLnvkgpgevtagdlkledadveivnpdilIakLrkgqeleleakvkkGiGkehak
#MATCH E v+H++++ip+v+edv+ei+lnlkelv + + + ++v+l L+++gp+ev a+d+ advei+npd++Ia+L++g +l++e++v +G+G+++a+
#PP 459************************9653...66777789*******************.8***********************************97
#SEQ EDVLHEFSTIPGVKEDVVEIILNLKELVvrF---LNPSLQTVTLLLKAEGPKEVKARDFLP-VADVEIMNPDLHIATLEEGGRLNMEVRVDRGVGYVPAE
#CS HHHHHHHHHSTBECTTHHHHCHCCCTT-..ESSSSSSTTTEEEEEEEEBSSSSEEGGGCEESSTTSCCSSTCSEEEEEESS-BEEEEEEEEEECTTTCCT
3aoi_H 18 381 17 383 PF04563.10 RNA_pol_Rpb2_1 Family 2 201 203 95.2 2.3e-27 1 No_clan
#HMM lveqqldSFneFldeglqeiieefskiedede.....elelslkveqvklkkPkikesdgkekeiyPeearlrnlTYssklyvdveltvketeekekekvfiGklPiMlrskacilnglseeelvklkecpldqgGyFivnGsekviiaqirr...................................................................................................................................................................................................eLlqsqfrvllnrlekdvrerlqkllkkkkelslkalvnskpitsglkefla
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...................................................................................................................................................................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RFl e+q++S+++ l+ ++ + +e+ i+ + + e l l + +++l +P + + +e+r ++lTY+++ly +++l+ k+t +++++vf+G++P+M++ G Fi+nG+ +vi+ qi r eL+++qfrv+l rl + vrer+ + +++ l++++lvns+p+ ++++ef++
#PP 789***************9999999998887789999999*****************..........********************************************........................**********************************************************************************************************************************************************************************************************************************************9999..********************8
#SEQ LTEIQVESYRRALQADVPPEKRENVGIQAAFRetfpiEEGLVLDFLEYRLGEPPFPQ----------DECREKDLTYQAPLYARLQLIHKDTGLIKEDEVFLGHIPLMTED------------------------GSFIINGADRVIVSQIHRspgvyftpdparpgryiasiiplpkrgpwidlevepngvvsmkvnkrkfplvlllrvlgydqetlarelgaygelvqglmdesvfamrpeealirlftllrpgdppkrdkavayvygliadprrydlgeagrykaeeklgirlsgrtlarfedgefkdevflptlrylfaltagvpghevddidhlgnrrirtvgELMTDQFRVGLARLARGVRERMLMGSEDS--LTPAKLVNSRPLEAAIREFFS
#CS TTHCCCCCCCCCCCTCHHHHCSTTTSB-XXXX.....XXXXXEEEEEEEEESEEEE-TTSSEEE--CCCCCCTT-B-EEEEEEEEEEXXXSS--SS-S-EEEEEEE-BTTSTTSCCCT--HHHHHHTTS-TT----SEECCCCEEEE-EEEEE...................................................................................................................................................................................................HHHHHHHHHHHHHHHHHHHHHHHCCCTCS-CSSCTTSSHTCCCCHHHHHHHC
3aoi_H 136 328 136 328 PF04561.9 RNA_pol_Rpb2_2 Domain 1 190 190 42.4 4.8e-11 1 No_clan
#HMM rsngiyvekekdknkisatvtsslisqrgsvlklekdgktliwtriskkrkipivivlkAlglvsdreIlericydsedsqlleelleeleekee.iqtqeealdyigkvvalrrgeearlqsareilq......krydlgeigreklnkhlglses......lenkrlkaqdilymidrLlslklgr..revDDiDhlgnkRvr
#MATCH rs+g+y+ +++++ ++ + ++++ +rg ++ le + ++++ + ++k+ k p+v++l+ lg d+e l r + + el + l ++++ eeal + lr+g++++ +a + +rydlge gr+k ++lg+ s +e k + +l ++L+ l +g evDDiDhlgn+R+r
#PP 89**************.************************99986666.************7..9999997665.....3.344444444444404566999999996..9*************9999***********************976552222214444489999************9964479***********97
#SEQ RSPGVYFTPDPARPGR-YIASIIPLPKRGPWIDLEVEPNGVVSMKVNKR-KFPLVLLLRVLGY--DQETLARELG-----A-YGELVQGLMDESVfAMRPEEALIRLFT--LLRPGDPPKRDKAVAYVYgliadpRRYDLGEAGRYKAEEKLGIRLSgrtlarFEDGEFKDEVFLPTLRYLFALTAGVpgHEVDDIDHLGNRRIR
#CS -SSEEEEEE--SSSSESSSSTXEEEEEEEEESSTTSSS-EEEEEETTCSSEEECHHHHCCTT--STTHHHHHH-SSTT-HHHHHCHHHHHHCCTT.S-SCHHHHHCCHHSSSTTSCCCHHHHHHHHHHH......HHHHHHHHTTTTSSTTT-SSSS......THCC..HHHHHHHHHHHHHHHHTTS..S-S--TT-CCCEEEE
3aoi_H 387 455 387 456 PF04565.11 RNA_pol_Rpb2_3 Domain 1 67 68 93.3 5.3e-27 1 No_clan
#HMM qvldqlNllselshkrrvnrl..gglskesktfevRdlhpsqyGriCpieTPEGanvGLvksLallari
#MATCH q+ d +N+ls+l hkrr+++l ggl++e++ f+vRd+h+++yGriCp+eTPEGan+GL++sLa +ar+
#PP 899****************************************************************98
#SEQ QFKDETNPLSSLRHKRRISALgpGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIGLITSLAAYARV
3aoi_H 465 529 465 529 PF10385.4 RNA_pol_Rpb2_45 Domain 1 66 66 83.3 7.2e-24 1 No_clan
#HMM YrkVengkvtdeivYLtAdeEekyvIAqanspldedgkivedtViaRrkgefllvppeeVdymDVS
#MATCH Yr+V g+vtde+vY+tA eE++y+IAqan+pl+ + +i ++V+aRrkge ++v+peeV++mDVS
#PP 9********************************887.****************************9
#SEQ YRRVVGGVVTDEVVYMTATEEDRYTIAQANTPLEGN-RIAAERVVARRKGEPVIVSPEEVEFMDVS
#CS EEECSSSBEESEESSB-STTTTTS-EE-TTS-EETTBEEE.SSEEEESTTEEEEETTTCTTEEEST
3aoi_H 537 994 535 994 PF00562.23 RNA_pol_Rpb2_6 Domain 3 386 386 457.7 2.4e-137 1 CL0410
#HMM vaslipfvehnqspriiiqsqmakqaig...................................................iyslnkykrsnqktcinqkplvktgdkvekgdiladgsatengelalGqnvlVafmsyeGynfEDaiiinerlverglftsihike.eveardtklgkseeitrdipnvseealkkldedGiikvgaevkegdilvgkitgetelspllraifgekakevkdtslrvksgeegvVdkvkifsr.kkgdelkegvnklvkvylaskrkiqvGDKfagrhGnKGvvskilpqeDmPfledGivpDiilNPlgvpSRmniGqllEtllgkaaalegkridttvFdgakeeeikellkeagyea...........................................kgkevlydGrtGepfkakvfvGviyylkLrHlvddKihaRstGpyslltqQPlkGkar
#MATCH ++lipf+eh +++r++++s+m+ qa+ y l+ ++rsnq t ++q+p v g++v+kgd+ladg+a+eng lalGqnvlVa+m+++GynfEDai+i+e+l++r+++tsihi++ e+eardtklg+ e+itrdip+ se+al++lde+G++++gaevk+gdilvg +kdtslrv+ ge g+V+++ +++r + g elk+gv ++v+vy+a+krk+qvGDK+a rhGnKGvv+kilp+eDmP+l+dG+++D+ilNPlgvpSRmn+Gq+lEt+lg+a++ g+r+ +++Fdgake eikell++a + +gk vlydGrtGep++ +++vG ++++kL H+v+dK+haRstGpysl+tqQPl+Gka+
#PP 5678999*************9999998899999********************************************99**************************************************************************************************.***************************************.....................48************998876665537899**********************************************************************************************************955444999************************************************************************************************97
#SEQ NTNLIPFLEHDDANRALMGSNMQTQAVPliraqapvvmtgleervvrdslaalyaeedgevakvdgnrivvryedgrlvEYPLRRFYRSNQGTALDQRPRVVVGQRVRKGDLLADGPASENGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFYTSIHIERyEIEARDTKLGP-ERITRDIPHLSEAALRDLDEEGVVRIGAEVKPGDILVGR---------------------TKDTSLRVPPGEGGIVVRTVRLRRgDPGVELKPGVREVVRVYVAQKRKLQVGDKLANRHGNKGVVAKILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQRYISPIFDGAKEPEIKELLAQAFEVYfgkrkgegfgvdkrevevlrraeklglvtpgktpeeqlkelflQGKVVLYDGRTGEPIEGPIVVGQMFIMKLYHMVEDKMHARSTGPYSLITQQPLGGKAQ
#CS HHHT-SS-TTB-HHHHHHHHHHGGGB-S...................................................---TTTTT---SSESS----SSB-S.TTTTTS.........GGGS-SEEEEEBBBS--TTTTTTT-EEEBCHHHHTTTT-EEEEEE..EEE--SSSS----.-S--..--SS-GGGS-TTSB--SS-EEETT-EEE---.B---XX.XXXXXXXXX-..-B---EE--TT-EEEEEEEEE........EE-TT--EEEEEEEEEEE---TT-BEEETTS---BBEEEB-TTTSEEETTS---SEEE-GGGCHHH-BTTHHHHHHHHHCCCSSSS--B--TT-...SHHHHHHHHHTTS-T...........................................T-EE-EEETTTS-B-SS-EEB-EEEEEEBS--CCCS----SS--B-TTT--B-SCGGG
3aoi_H 996 1070 996 1072 PF04560.15 RNA_pol_Rpb2_7 Domain 1 80 82 100.9 3.4e-29 1 No_clan
#HMM GGlRfGEMErdaleayGAaalLkErltikSDklevdvcgrcgllaaivkgeeeiekveipeafklllkeLqslgldirlk
#MATCH GG+RfGEME++aleayGAa++L+E+lt kSD d++gr+ +++ai+kge+ +e+ +pe+f++l+keLq+l+ld+++
#PP 9******************************....**********************.******************9875
#SEQ GGQRFGEMEVWALEAYGAAHTLQEMLTLKSD----DIEGRNAAYEAIIKGEDVPEPS-VPESFRVLVKELQALALDVQTL
#CS BBEEEEHHHHHHHHHCTBHHHHHHHHTTTTTEEEEEEESSSCCSCCTTTTSSSEEEEECEHHHHHHHHHHHCTTEEEEEE
3aoi_I 1 394 1 394 PF04997.7 RNA_pol_Rpb1_1 Domain 1 337 337 237.5 2.2e-70 1 No_clan
#HMM ekkikevqfgiaspeeirkwSvvevtkpetinekslkpeegGllderigt.ikkksiCetckeevtecrghfGhieLakPvfhigffkkvlsilkcvcvlcsslllseeekkfelkivkkkk....gkkkkkklkiinelckkksiceksk.......eenenvk............elekl.....................................................................eaaegcekkqpkiskegaealkellkkseeeeelkeklr.klnaekvlqilkkiskedveilgfnnsgskPewliltvlPVpPpeiRPsvqldgkrtaedDlteklreIikrNnrLkkleeegapehiireekrlLQehvatlfdneikgkpvasqkskrplksisqrLKGKeGRfRgNL
#MATCH +k++ +v++ +aspe+ir+wS++ev+kpetin+++lkpe++Gl+deri++ ik +r+++GhieLa+P +hi+f+k v+s k+ +l++s+ + e++ +f ++iv ++k + + +k +++++ ++++ + k++ + + ++ + + ++ + +++gaea+++llk+ + e+ ke l+ + ++++ k +k+++++ f +sg++Pew+il+ +PV+Pp++R +Dl++++r+ i+rNnrLkkl+++gape+iir+ekr+LQe+v++l+dn ++g pv++ s rpl+s+++ L GK+GRfR+NL
#PP 589**********************************************94443............59************************..****************************9976666778888888888777766655445544440.....13443443334440...04555666666777777777788888888889999999999999999999****************9995555555.55678899***********87333333333332224444..455699********************************9............9*******************************************************************************9
#SEQ KKEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFGpIKI------------VRRYRMGHIELATPAAHIWFVKDVPS--KIGTLLDLSATELEQVLYFSKYIVLDPKgailNGVPVEKRQLLTDEEYRELRYGKQEtyplppgV-----DalvkdgeevvkgQ---ElapgvvsrldgvalyrfpasilvvkarvypfeddvevstgdrvapgdvladggkvksdvygrvevdlvrNVVRVV-ESYDIDARMGAEAIQQLLKELDLEALEKELLEeMKHPSR--ARRAKARKRLEVVRAFLDSGNRPEWMILEAVPVLPPDLR------------SDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNEKRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNL
#CS BE---EEEEEE--HHHHHHH-SBB--STTSTCCTS.SSBBSSSSSSSSS-.SSSSSTSTTTSSTSTT-----EEEEEECEEE-HCCHHHHHHHCTTCETTTTEBSS-TTSH....HHHHHHH....SSSCCCCHHHHHHHHCC--B--SCC.......C-SSS--............-SSSE.....................................................................ECSSSSSSB-BEEEEET.TCEEEEE-SSTTTSSCSSCEE.EE-HHHHHHHHHCS-HHHHHHTT-BTTTB-GGGSSECCEEE--GGGS-BESSSSSSEEB-CCCCHHHHHHHHHHHHHHHHCSSSSSTCCHHHHHHHHHHHHHTT-TTSSSSSB-BSTTSSS--THHHHHTSSSSCCCCCT
3aoi_I 396 540 396 541 PF00623.15 RNA_pol_Rpb1_2 Domain 1 165 166 172.9 4.9e-51 1 No_clan
#HMM GkrvdysaRsvivpdpnlkldevgvPkelakeLtvpeivtklnikklkklvlngknkypgakyierekgakkklekkkeklakelekgkkvlrhvkkgdvvllNRqPtLhrlsimahkvkvleektlrlnllvckayNaDFDGDemnlhvpqseearaEaeelml
#MATCH Gkrvdys+Rsviv++p+lkl+++g+Pk++a+eL++p+ ++k+++k ++ + k a+++le++ + +++e++ + l++v++g+vvllNR+PtLhrl+i+a++++++e+++++l++lvc+a+NaDFDGD+m++hvp+s+ a+aEa+ ml
#PP 9*******************************************99998................456788999988.46999999...99*********************************************************************99886
#SEQ GKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKGIAP----------------NVKAARRMLERQ-RDIKDEVW---DALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQML
#CS S-EESSEEEEEEEEETTSSTTEEB-BHHHHCCHHHHHCHHCCCHCCCCCHHHH.TTSSS.EEEEESCCHHCHHCCTTSS.--HHHHSS.CCCCHHHTT-EEEEEESS--SGGGCEEEEE--BSSSSEEEECGGCHHHT--TSS-EEEEE---SCCHHHHHHHCCB
3aoi_I 544 729 544 730 PF04983.13 RNA_pol_Rpb1_3 Domain 1 157 158 100.6 6.7e-29 1 No_clan
#HMM nilspqsgkPvigivQDsllGvyllTked........vfidreeaqqllykgvgsdkktvtlrpailkp.ke....................................lwtgkqtfsrilpneinyerkpneekdgkvlikngelikGvidkkvvgkksqgslihvlakeygiketvrfldslqrlgfkyllqsgftigigD
#MATCH n+lsp+sg+P++++++D++lG+y++T+ + f+++eea+++ ++g +v l+++i+++ +e ++ ++++ +ril+ +i+ e + +ek + li+ + +k+s+++l+++ ++++g+++t+r+ld+l+++gf+++++sg+tigi+D
#PP 89**************************************************......899999999997779999999999999999999999999999999999999*****************9963.22235666666666.........468********************************************9
#SEQ NLLSPASGEPLAKPSRDIILGLYYITQVRkekkgaglEFATPEEALAAHERG------EVALNAPIKVAgREtsvgrlkyvfanpdeallavahgivdlqdvvtvrymGKRLETSPGRILFARIVAEAVE-DEKVAWELIQLDVP---------QEKNSLKDLVYQAFLRLGMEKTARLLDALKYYGFTFSTTSGITIGIDD
#CS CSEETTTTEESS---THHHHHHHHCTSTT........-EEEHHHHHHHHHCSST--SSHHSSSSSBCSS.SC....................................EEEHHHHHHTTSHTCCCEECCC-CSSS-SEEECTSCEEEC--SHHHHSCSCTTCHHHHHHHHSHCCHHHHHHHHHHHHHHHHHHHHTBB-SGGG
3aoi_I 760 826 759 844 PF05000.12 RNA_pol_Rpb1_4 Domain 2 81 108 51.3 7.7e-14 1 No_clan
#HMM eeaerygkledlpgksleelfeakinkilnkardkagkiaskslaasNsiliMvksGaKGsiinisqiagclGqqnvegk
#MATCH ++ ery+++ +l+++++e++++a ++++ + + + ++ N++++M++sGa+G++ +i+q++g++G++++++
#PP 889**************************9..3.3.........46.*****************************9954
#SEQ TDRERYDQILQLWTETTEKVTQAVFKNFEE--N-Y---------PF-NPLYVMAQSGARGNPQQIRQLCGLRGLMQKPSG
#CS HHHHTHTHCHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHCCS-TSSHHHHHHHHSSS--HHHHHHHHT--EEEECTTC
3aoi_I 840 1199 840 1200 PF04998.12 RNA_pol_Rpb1_5 Domain 1 276 277 192.8 6.8e-57 1 No_clan
#HMM GLtpqefffhtmggReGLiDTAvKTaetGYlqRrLvkaledvvvkyddtvrnsggeivqflygedg.....................................................................................lvepGeavGiiAAQSiGEPgTQltlnTFHfaGvasknvtlgvprlkeilnvaknnkkpvltvllekkaekkkakakkvkeeeel..............vkegekvkagekltdgrvdpeeklekkekelllktegtelqevyklqgvidndktvsndikeilkvlgIeaaresilkeieevfkeegievnrrhlalladlmtakgvllgitraglnkekesfis
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.....................................................................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx..............xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RFGLt+ e+f++++g+R+G +DTA++Ta++GYl+R+Lv++++++vv++ d+++++ +++ f e + v++GeavGi+AAQSiGEPgTQlt++T +g pr+ e +++ + k+v+++ + ++++++++v+ e+e vk+g+ v+ag+ lt+g++dp++ le k+ e + ++ ++e+q+vy+ qgv dk++++ +++++k ++++++++s+l e++ + k ++ + n+r +a+++ ++ k+ l+g+t+++l+++ s++s
#PP 9*****************************************************9877665555.45**************************************************************************************************************8............67777777777777777777666666666666666666666666666677777777778**********************************************************************************************************************99..7765
#SEQ GLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQPDE-VtrslrlrkradieaglygrvlarevevlgvrleegrylsmddvhllikaaeageiqevpvrspltcqtrygvcqkcygydlsmarPVSIGEAVGIVAAQSIGEPGTQLTMRT------------QGLPRVIELFEARRPKAKAVISEIDGVVRIEETEEKLSVFVESEGfskeyklpkearllVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDSRLLEGQVLEKWDVEALNERLIAEGKTPVAWKPLLMGVTKSALSTK--SWLS
#CS ---HHHHHHHHHHHCCCCCHHHHCCCHHHHHHHHHHHHHTT-EEETTTEEE-TTS-EEESSCCCTS.....................................................................................B--TT-BHHHHHHHHHHHHHHCCCCCTTSTTCSSTSSSSSSHHHHHHHHCT-SS-SS-EEEEEB-SSTSSTCCCCHHHHCCCS-..............CSBTT-EEEEEEEEEEEEE-TTSSEEEEEEEEEEESS--HCCCTTSTT.BETTTEEES-HHHHHHHCTHHHHHHHHHHHHHCCCHCTT----HHHHHHHHHHHCTTSS---SSTTTGCGS.SSHHH
3aoi_J 7 42 6 57 PF01192.17 RNA_pol_Rpb6 Family 2 37 57 28.1 1.2e-06 1 No_clan
#HMM rltskylnrYelariiakRAlq.lsygapplvdeene
#MATCH +l ++++Y+l++++akRA+q l++g + +v e+e
#PP 677889****************6669988888.5555
#SEQ KLFGMVDSKYRLTVVVAKRAQQlLRHGFKNTV-LEPE
#CS HHTTSS--HHHHHHHHHHHHHH.HHTS---TT---SS
3aoi_Y 3 70 1 70 PF03449.10 GreA_GreB_N Domain 6 74 74 47.2 1.6e-12 1 No_clan
#HMM iTaegyeklkeeleeLkkverpeiikaiaeArelGDlsENaeYkaakeeqreieaRireLedrLeraei
#MATCH +T++gye+l ++le+ ++++ +e++k ++e +e D+ +++ +aak+e+++ieaRi+ Led+L+ra i
#PP 8**************.99*************************************************87
#SEQ LTKAGYERLMQQLER-ERERLQEATKILQELMESSDDYDDSGLEAAKQEKARIEARIDSLEDILSRAVI
3aoi_Y 77 151 73 152 PF01272.14 GreA_GreB Domain 4 76 77 68.9 2.2e-19 1 CL0487
#HMM dkVgfgatVtledldegeeetytiVgpdeadpdeg..kiSveSPlGkaLlgkkvGDtvevkapdgkekyeIikie
#MATCH +++g+g++V+led +ge+ ++++V p ea++ + kiS SP+GkaLlg++vGD+ + ++p+g +++++++i+
#PP 79******************************55557****************************999****995
#SEQ EVIGLGSVVELEDPLSGERLSVQVVSPAEANVLDTpmKISDASPMGKALLGHRVGDVLSLDTPKGRREFRVVAIH
#CS -B-SSSEEEEEE-TTTT-EEEEEEE-GGG-BSSST..EEETTSHHHHHHTT-BTT-EEEEEBTTBEEEEEEEEEE