HHsearch alignment for GI: 254780143 and conserved domain: TIGR03670
>TIGR03670 rpoB_arch DNA-directed RNA polymerase subunit B. This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.
Probab=100.00 E-value=0 Score=1248.33 Aligned_cols=506 Identities=35% Similarity=0.520 Sum_probs=435.1
Q ss_pred CCCCCCCEEEEEECCCC----------------------CCCEEECCHHHHCCEEEECCCCEECCCCCCCCCCEEECCCC
Q ss_conf 68764410698622553----------------------48166429677376379616534114684022200000023
Q gi|254780143|r 594 AYGFIETPYRKVCDGKV----------------------TNDVVYLSAMEEENRYIAQANSSLDEDGSFTEELVFCRCAG 651 (1386)
Q Consensus 594 ~~g~ie~py~~v~~~~~----------------------~~~i~~l~~~~e~~~~Ia~~~~~l~~~~~~~~~~~~~r~~~ 651 (1386)
T Consensus 50 D~GR~~RPl~vv~~~k~~~~~~~~~~l~~~~~~w~~l~~~g~IEyiD~~Ee~~~~Ia~~~~~~~---------------- 113 (599)
T TIGR03670 50 DAGRIRRPLIVVENGKPKLTREHVEKLKEGELTWDDLVKQGVIEYLDAEEEENAYIALDPEELT---------------- 113 (599)
T ss_pred CCCEEEEEEEEEECCCCCCCHHHHHHHHCCCCCHHHHHHCCCEEEECHHHHCCCEEEECHHHCC----------------
T ss_conf 8986466889987995736699999876189888999756988981777721838981688937----------------
Q ss_pred CCCCCCHHHEEECCCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHHHCCCCCCCCEECCCCCHHHHHHCCCEEECCC
Q ss_conf 33322578722023672110231123332011010022112223444321013665411126620111010653010212
Q gi|254780143|r 652 EEILVPREKIDFIDASPKQVVSIAASLIPFLENDDSNRVLMGCNMQRQAVPLLKAEAPFVGTGMESVVAKSSGAAIVAKR 731 (1386)
Q Consensus 652 ~~~~~~~~~v~~~~i~p~~i~sv~aslIPflehdda~R~l~g~nm~rQav~l~~~~~~~v~tg~E~~~~~~s~~~i~a~~ 731 (1386)
T Consensus 114 -------~~~TH~EI~Ps~ilgv~AslIPF~~hNqsPRn~yq~~M~KQA~G~~~~n~~---------------------- 164 (599)
T TIGR03670 114 -------PEHTHLEIDPSAILGIIASTIPYPEHNQSPRNTMGAAMAKQSLGLYAANYR---------------------- 164 (599)
T ss_pred -------CCCEEEEECHHHHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC----------------------
T ss_conf -------774598757899766654356675678862456554312242364433586----------------------
Q ss_pred CCCCCCCCCCCEEEECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCEEECCCEECCCCCCCCCCCCCCCCC
Q ss_conf 44343356553025215665564446630111465554454732244530447977207852035522357860222375
Q gi|254780143|r 732 AGIVEQVDAIRIVIRSVEGDLDPSTSGVDIYRLMKFQRSNQNTCVNQRPLVKVGDEVRRNDIIADGPSTDLGDLALGRNM 811 (1386)
Q Consensus 732 ~g~v~~vd~~~i~i~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~q~p~V~~g~~~~~~~~l~~~~~~~~~el~~G~N~ 811 (1386)
T Consensus 165 -------------------~R~Dt~~~~--------------L~yPQ~PlV~T~~~----------~~~~~~~~P~G~Na 201 (599)
T TIGR03670 165 -------------------IRLDTRGHL--------------LHYPQKPLVKTRVL----------ELIGYDDRPAGQNF 201 (599)
T ss_pred -------------------EEEECCCEE--------------EECCCCCEEEEEEE----------ECCCCCCCCCCEEE
T ss_conf -------------------787245149--------------95288756997631----------31575558898127
Q ss_pred EEEEEECCCCCCCCCEECCHHHHHCCCCCEEEEEEEEHHHHHCCCCCCC-CCCCCCCC----CHHHHHHCCCCCCCCCCC
Q ss_conf 1555313554444420000134425873103466653112114788400-24666546----867841024137413773
Q gi|254780143|r 812 LVAFMPWHGYNFEDSMLISERMVSEDVFTSIHIEEFEVMARDTKLGPEE-ITRDIPNV----SEEGLKNIDECGIICVGA 886 (1386)
Q Consensus 812 ~VA~m~~~GYN~EDaiiin~~~v~rg~~~s~h~~~y~~~~~~~~~g~~~-~~~~~~~~----~~~~~~~ld~~Giv~~G~ 886 (1386)
T Consensus 202 iVAImsYtGYNqEDAIIiNksSvdRGlfrs~~yrty~~ee~~~~~g~~e~~~~p~~~v~~~k~~~~y~~LD~dGii~~G~ 281 (599)
T TIGR03670 202 VVAVMSYEGYNIEDALIMNKASIERGLARSTFFRTYEAEERRYPGGQEDRFEIPEPDVRGYRGEEAYKHLDEDGIVYPEV 281 (599)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEEEEEEEEEECCCCCCEEEECCCCCCCCCCCHHHHHHCCCCCCCCCCC
T ss_conf 99997977868889888877788708836999999999977257986127747986434677766675368578837997
Q ss_pred EECCCCCEEECCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 31367611101246777767703466543035555443233202278853220012101456542026678888999999
Q gi|254780143|r 887 EVNPGDILVGKITPKGESPMTPEEKLLRAIFGEKAVDVRDTSLRVPSGVSGTVVDVRIFNRHGIDKNERSISVEREQIEL 966 (1386)
Q Consensus 887 ~V~~gDilvgk~tp~~~~~~~pe~~~l~~i~~~~~~~~~d~~~~~~~g~~g~v~~~~~~~r~~~~~~~~~~~~~~~~~~~ 966 (1386)
T Consensus 282 ~V~~gDvlIgK~~p~~~~~-------~~~~~~~~~~~~~d~S~~~k~~e~g~VD~V~i~~-------------------- 334 (599)
T TIGR03670 282 EVKGGDVLIGKTSPPRFLE-------ELRELGLVTERRRDTSVTVRHGEKGIVDKVIITE-------------------- 334 (599)
T ss_pred EECCCCEEEEEECCCCCCC-------CCCCCCCCCCEEEECCEECCCCCCCEEEEEEEEE--------------------
T ss_conf 8779998998635864221-------2211156443687663663699852146999984--------------------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHEEEECCHHHHHHHHHHHHHHHHHH
Q ss_conf 98728889998878889888886258534566555554321135764014854310014158678999999999899999
Q gi|254780143|r 967 LARDKDDEQVILDRNIYSRLMEILCGQNAVSGPKGFKKSTVLSSDLISEYPRSQWWQFAVQDEKVQRNVESLKVQYETSK 1046 (1386)
Q Consensus 967 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1046 (1386)
T Consensus 335 -------------------------------------------------------------------------------- 334 (599)
T TIGR03670 335 -------------------------------------------------------------------------------- 334 (599)
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCEEEEEECCCC
Q ss_conf 99999989887631258867747276999999875588552314336678735888630000787935871569866898
Q gi|254780143|r 1047 SILEDRFKNKIEKIQWGDDMPPGVLRVVKVFVAMKRPIQSGDKMAGRHGNKGIVSRILPCEDMPFLKDGTPVDIVLNPLG 1126 (1386)
Q Consensus 1047 ~~~~~~~~~k~~ki~~~~~~~~gv~~~vKV~ir~~R~p~iGDKfasRHGqKGVis~i~p~eDMPf~~dG~~pDIIlNPhg 1126 (1386)
T Consensus 335 --------------------~~~g~~~vkVriR~~R~P~iGDKFsSRHGQKGvig~i~~qeDMPFt~dGi~PDIIiNPHa 394 (599)
T TIGR03670 335 --------------------TEEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIINPHA 394 (599)
T ss_pred --------------------CCCCCEEEEEEEEEECCCCCHHHHCCCCCCCCEEEEECCHHHCCCCCCCCCCCEEECCCC
T ss_conf --------------------478867999998102056532233123466633320126753997889998708989987
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEE
Q ss_conf 67507089999999999998719622433343222210246777877631543221000013525677766530268400
Q gi|254780143|r 1127 VPSRMNVGQIFETHLGWACVGLGKKIKSLINDYKANGDISPLRSFLEKVIGTGSHTEKISDYDDDSVLRVAEQWKSGVPV 1206 (1386)
Q Consensus 1127 vPSRMtIGqllE~~lGka~~~~G~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 1206 (1386)
T Consensus 395 ~PSRMTIGqllE~l~gK~~~~~G~~~d----------------------------------------------------- 421 (599)
T TIGR03670 395 IPSRMTVGQLLEMIAGKVAALEGRRVD----------------------------------------------------- 421 (599)
T ss_pred CCCCCCHHHHHHHHHHHHHHHCCCCEE-----------------------------------------------------
T ss_conf 876550899999998999996698422-----------------------------------------------------
Q ss_pred CCCCCCCCCHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCEEEEEEEEEECCCHHHHHCCCCCCCCCCCEEECCCCCC
Q ss_conf 25655788999999999986868998699986898840268504884645410110211000023687311030799862
Q gi|254780143|r 1207 STPVFDGADEEAINSMLRMADLDESGQSILYDGLTGEPFDRPVTVGYIYMLKLNHMVSDKVYARSTGSYSLVTQQPLGGK 1286 (1386)
Q Consensus 1207 aTP~F~g~~~~~i~~~L~~aG~~~~Gke~lydG~TGe~~~~~IfvG~~YyqkL~HMV~DKiHARstGP~sllTrQP~eGR 1286 (1386)
T Consensus 422 ~tp-F~~~~~~~~~~~L~~~g~~~~G~e~my~G~tG~~~~~~IfiG~~yYqRL~HmV~DK~~~R~~Gp~~~lTrQP~~GR 500 (599)
T TIGR03670 422 GTP-FEGEPEEELRKELLKLGFKPDGKEVMYDGITGEKLEAEIFIGVIYYQKLHHMVADKIHARSRGPVQVLTRQPTEGR 500 (599)
T ss_pred ECC-CCCCCHHHHHHHHHHHCCCCCCCEEEECCCCCCEECCEEEEEHHHHHHHHHHHCCCEEEECCCCCCCEECCCCCCC
T ss_conf 478-9999999999999981999889988753878978401489866787756654101203322288755302889865
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCH-------HHHH-------HHHHHHHCCC--CCCCCCCCHHHHHH
Q ss_conf 331784320789999999869899998611100110-------1599-------9988763878--78997866778999
Q gi|254780143|r 1287 SNRGGQRLGEMEVWCIQAYGAAYVLQEMLTIKSDDV-------VGRT-------RVYESIVAGN--DTFETGTPESFNVL 1350 (1386)
Q Consensus 1287 sr~GGlRfGEMErwaL~AyGAa~~LqE~Lt~kSDdv-------~gr~-------~~~~~iv~g~--~~~~~~~pesf~vl 1350 (1386)
T Consensus 501 ~r~GGlR~GEMErd~liahGas~~l~erl~~~SD~~~~~vC~~CG~i~~~~~~~~~~~C~~C~~~~~i~~v~iPya~Kll 580 (599)
T TIGR03670 501 AREGGLRFGEMERDVLIGHGAAMLLKERLLDESDKYVVYVCENCGHIAWEDKRKGTAYCPVCGETGDISPVEMSYAFKLL 580 (599)
T ss_pred CCCCCCCEEHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCEEEECCCCCEECCCCCCCCCEEEEECCHHHHHH
T ss_conf 56898013206789999876999999987425887168840267840354135797489888997826787678999999
Q ss_pred HHHHHHCCCCEEEEECCC
Q ss_conf 999985420027640665
Q gi|254780143|r 1351 VKEMQALGLSIDLENSRT 1368 (1386)
Q Consensus 1351 ~~El~~l~l~~~~~~~~~ 1368 (1386)
T Consensus 581 ~qEL~sm~I~~rl~~ed~ 598 (599)
T TIGR03670 581 LDELKSLGISPRLELGDK 598 (599)
T ss_pred HHHHHHCCCCEEEEECCC
T ss_conf 999987898338985577