HHsearch alignment for GI: 254780142 and conserved domain: CHL00018
>CHL00018 rpoC1 RNA polymerase beta' subunit.
Probab=100.00 E-value=0 Score=1460.35 Aligned_cols=571 Identities=43% Similarity=0.711 Sum_probs=513.6
Q ss_pred CCCEEEEEEECCCHHHHHHCCE---------EEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCC
Q ss_conf 6405368984588678850144---------8971755425456875688733621368566772156641563---448
Q gi|254780142|r 15 DRGFDSVRISIASPAKIASLSY---------GEIKKPETINYRTFKPERDGLFCARIFGPIKDYECICGKYKRM---KYK 82 (1398)
Q Consensus 15 ~~~i~~i~f~l~spe~I~~~S~---------~ev~~~et~n~~~~kP~~~Gl~d~ri~g~~~d~~c~Cg~~~~~---~~~ 82 (1398)
T Consensus 4 ~~~f~~i~I~lASPe~Ir~WS~r~lpng~~vGEV~kpeTINYrT~KPE~dGLFCErIFGP~kd~eC~CGKYK~i~~~k~~ 83 (668)
T CHL00018 4 RYKHQQLRIGLASPQQIRAWAERILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERIFGPIKSGICACGNYRVIGDEKED 83 (668)
T ss_pred CCCCCEEEEEECCHHHHHHHHHHHCCCCCCCCEECCCCCCCCCCCCCCCCCEEEHHHHCCCCCCEEECCCCCCCCCCCCC
T ss_conf 24666379982698999998763066776031688965400577898888881003208885866758775224655657
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHCCCHHHHHHHHHHCCEEEECCCCC----CHHHH
Q ss_conf 83567578853047757876772002776220130122578999980999656301332111232178865----10432
Q gi|254780142|r 83 GIICEKCGVEVTLSSVRRDRMAHIDLASPVAHPWFLKSLPSRISTLLGMSLRDVERVLYFESYVVVDPGLS----SLEKY 158 (1398)
Q Consensus 83 g~~C~~Cg~~~~~~~~r~ghfGhIeLa~PV~Hi~f~k~~~~~i~~~l~~~~~~~~~v~y~~~~~~~~~~~~----~~~~~ 158 (1398)
T Consensus 84 g~vCerCGVEvt~S~VRR~RMGHIeLAaPV~HIWYlK~~PS~Ia~LLdls~KeLEkViYf~~~iv~~~~~~~~~~~lk~~ 163 (668)
T CHL00018 84 PKFCEQCGVEFVDSRIRRYRMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFSFARPIAKKPTFLRLRGL 163 (668)
T ss_pred CCCCCCCCCCCCCCHHHHHCCCCEEECCCCCCHHHHCCCCHHHHHHHCCCHHHHHHEEEEEEEEEECCCCCCCHHHHHHH
T ss_conf 62468778360401666750575545587130234268805999984898888754211037985246778413436777
Q ss_pred CCCCHHHHHHHHHHCCC-------CCEEECCCHHHHHHHHHHCCHHHHHHHHHHHHHCC-------------CCCHHHHH
Q ss_conf 23699999886763585-------55061155267788877267488999999873103-------------22034788
Q gi|254780142|r 159 QILTEEEYVEAVSQFGQ-------DQFIAMMGADAIYELLIALDLQNLALTLRDQLSKS-------------SSIFRRKK 218 (1398)
Q Consensus 159 ~~~~~~~~~~~~~~~~~-------~~~~~~~g~~~i~~~l~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~ 218 (1398)
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~GaeAIkklL~~lDL~~~~~~l~~elk~l~~~~~~~~e~e~~ki~~kk~k 243 (668)
T CHL00018 164 FEYEIQSWKYSIPLFFTTQGFDTFRNREISTGAGAIREQLADLDLRIIIENSLVEWKELGEEGPTGNEWEDRKIGRRKDF 243 (668)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_conf 89999999987776530110032220221656999999997269999999999999975552010123445567788999
Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHH
Q ss_conf 64477888666634898511286304507622351388469731310037899999998699999987--3983567776
Q gi|254780142|r 219 IIKRLKIVDSFITSGNNPGWMIIRKLPVLPPDLRPLVALDFGRFAASDLNDLYRRVIGRNNRLMRLKS--LHAPEIIIRN 296 (1398)
Q Consensus 219 ~~~~~~~~~~f~~~~~~Pewmil~~lpV~P~~~RP~v~~~~g~~~~dDlt~~~~~Ii~~N~~Lk~~~~--~~ap~~i~~~ 296 (1398)
T Consensus 244 liKRLkli~~F~~SgnkPEWMILtVLPVLPPdLRPmVqLDGGrFatSDlN~lYrriI~rNnrL~~l~~~~~~~p~iIi~n 323 (668)
T CHL00018 244 LVRRIELAKHFIRTNIEPEWMVLCLLPVLPPELRPIIQLDGGKLMSSDLNELYRRVIYRNNTLTDLLTTSRSTPGELVMC 323 (668)
T ss_pred HHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHH
T ss_conf 99999999999866999424886345548987742489579841578517899999999999988775024895899999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCEEECCCCCCCCCCCCEEEECCCCCCCCCEECHHHHHH
Q ss_conf 99999998888742776787724787650678998610237820003465100457740341255435462003489877
Q gi|254780142|r 297 EKRMLQESVDALFDNGRHKRVVTGANRRPLKSLSDMLKGKQGRFRTNLLGKRVDYSGRSVIVAGPELQLHQCGLPKLMAL 376 (1398)
Q Consensus 297 ~~~lLQ~~v~~~~dn~~~~~~~~~~~~rp~ks~~~rlkgK~GrfR~nl~GKRVdfs~RsVI~pdP~l~~~evgvP~~~A~ 376 (1398)
T Consensus 324 EkR~LQeaVd~lidN~~~g~~~~~~~~rplKslsd~lkGK~GrfRqnLlGKRVdySgRsVI~vgP~L~l~qcGlP~~mA~ 403 (668)
T CHL00018 324 QKKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRENLLGKRVDYSGRSVIVVGPSLSLHQCGLPREIAI 403 (668)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEECCCCCCEEECCCCCHHHHH
T ss_conf 99999999999872678788751889983411898854667610100366510455650332699732101288789999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCEEECCCCCEEHHHHHHHCCCEEEECCCCCCEECCEEEEEEEEECCCEEEEECCCC
Q ss_conf 61289999999987986663000100122488250132666569789975763101114012358994495479731225
Q gi|254780142|r 377 ELFKPFLYAQLEKKGYVSTVKQAKKFVEKERPEVWDVLAEVVHQHVVLLNRAPSLHRLSMQAFEPKIISGKAIQLHPLVC 456 (1398)
Q Consensus 377 ~L~~P~~~~~L~~~g~~~~i~~~k~~i~~~~~~v~~v~rhl~~gd~Vl~NRqPsLHr~Simah~~~v~~~~t~rln~~vc 456 (1398)
T Consensus 404 eLf~pf~i~~l~~~~~~~~~~~ak~~i~~~~~~~~~~l~~v~~~~~vllNRaPTLHrl~iqaf~p~l~~g~ai~lhplvc 483 (668)
T CHL00018 404 ELFQPFVIRGLIRQHLASNIRVAKSKIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPILVEGRAICLHPLVC 483 (668)
T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCEEEECCCCCCCCCCCEEEEEEECCCCEEEECCCCC
T ss_conf 86028999999862776770788899986585999999987439847981785212132200025632783477244567
Q ss_pred CCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEHHHHHHHHHHHHCCCC-------------CCC
Q ss_conf 4546787754569974689999999999876750542378878204402589999998733678-------------874
Q gi|254780142|r 457 AGYNADFDGDQMAVYAVISPEAQLEARVLMLSTNNLLHPASGAPVTVPSQDMVLGLCYLSTVHE-------------GDP 523 (1398)
Q Consensus 457 ~pyNADFDGDEMnlHvPqs~eAraEa~~Lm~~~~niisP~~g~Pi~~~~QD~i~G~y~lT~~~~-------------~~~ 523 (1398)
T Consensus 484 ~~fNADFDGDqMavhvpls~ea~~Ea~~lm~s~~NilsPa~G~Pi~~psqdmvlg~yylt~~~~~~~~~~~~~~~~~~~~ 563 (668)
T CHL00018 484 KGFNADFDGDQMAVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPISVPSQDMLLGLYVLTSGNRRGICANRYNYQNDDNN 563 (668)
T ss_pred CCCCCCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCC
T ss_conf 87679988830465168998999999998644057777888997124442201143365035655432222211133546
Q ss_pred CCCCEECCHHHHHHHHHCCCCCCCCEEEEEECCCC--------------------------------CCCCCCCEEECCC
Q ss_conf 46814179999999998889867852365204645--------------------------------6676142452179
Q gi|254780142|r 524 GEGMLFADMGEVYHALENKIVTLHSKIRGRYKSVD--------------------------------KDGNSISKIYDTT 571 (1398)
Q Consensus 524 ~~~~~f~~~~~~~~~~~~~~~~~~a~i~~~~~~~~--------------------------------~~~~~~~~~~~tt 571 (1398)
T Consensus 564 ~~~~~f~~~~~~~~ay~~~~i~l~~~i~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~i~TT 643 (668)
T CHL00018 564 TKEPYFSNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIASREVPIEVQYESLGTYHEIYEHYLIVKSVKKEILSIYIRTT 643 (668)
T ss_pred CCCCEECCHHHHHHHHHCCCEECCCEEEEEECCCCCCCCCCCCCEEEEECCCCCCEEECCCCEEEECCCCCEEEEEEEEC
T ss_conf 78864689999999997594112560699723654444554565157751578511311011134225787556899707
Q ss_pred CCCCCCCEEEECCC
Q ss_conf 77511220554587
Q gi|254780142|r 572 PGRMIIGEILPRHH 585 (1398)
Q Consensus 572 ~Gr~~~~~ilp~~~ 585 (1398)
T Consensus 644 ~Gri~fn~~i~~~l 657 (668)
T CHL00018 644 VGRILFNREIEEAI 657 (668)
T ss_pred CCEEEHHHHHHHHH
T ss_conf 76113555659988