HHsearch alignment for GI: 254780237 and conserved domain: PRK05182
>PRK05182 DNA-directed RNA polymerase subunit alpha; Provisional.
Probab=100.00 E-value=0 Score=804.32 Aligned_cols=305 Identities=55% Similarity=0.899 Sum_probs=290.2
Q ss_pred HCCCCCCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 51797420158636788815899996169756678889999987416983068899988714431466462444999998
Q gi|254780237|r 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 (340)
Q Consensus 8 ~~~~P~~i~~~~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~EDV~eIiL 87 (340)
T Consensus 2 ~~~~p~~~~~~---~~~~~yg~F~i~Ple~G~G~TiGNaLRRvLLssi~G~aIt~vkI~Gv~HEfsti~GV~EdV~~IlL 78 (306)
T PRK05182 2 EFLKPKKIEVE---EESDNYGKFVLEPLERGFGTTLGNALRRVLLSSLPGAAVTSVKIDGVLHEFSTIPGVREDVTEIIL 78 (306)
T ss_pred CCCCCCEEEEE---ECCCCEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHH
T ss_conf 77688676898---647977999996588874315789999999856985189999988964312348871666999997
Q ss_pred HHCCCEEEECCCCCEEEEEEEECCEEEEEEEEECCCCEEEECCCEEEEEECCCCEEEEEEEEECCCCCEECCCCCCCCCC
Q ss_conf 40114177727982799999944716996335138985998888089997789649999997468763203444465575
Q gi|254780237|r 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 (340)
Q Consensus 88 NLK~I~~k~~~~~~~~~~l~~~Gp~~vtA~Di~~p~~veivNpd~~IaTl~~~~~l~iel~ie~G~GY~~~e~~~~~~~~ 167 (340)
T Consensus 79 NLK~i~~k~~~~~~~~~~l~~~Gp~~vtA~Di~~p~~veivnpd~~Iatl~~~~~l~~el~i~~G~GY~~~~~~~~~~~~ 158 (306)
T PRK05182 79 NLKGLALKLEGEEEKTLTLSKKGPGEVTAGDIETDSDVEIVNPDLVIATLNEGAKLEMELTVERGRGYVPAEENKKEDRP 158 (306)
T ss_pred HHHCCEEEECCCCCEEEEEEEECCCEEEHHHCCCCCCEEEECCCEEEEEECCCCEEEEEEEEECCCCCCCHHHCCCCCCC
T ss_conf 33042798348975899999946834887474898843996898899997788639999999888353112104555677
Q ss_pred CCEECCCCCHHEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHC
Q ss_conf 43021243111144223577641168877621899999938961777999999999999888762244443221000000
Q gi|254780237|r 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 (340)
Q Consensus 168 ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~~~~~~~~~~~~~~~~ 247 (340)
T Consensus 159 ig~i~iDa~FsPV~kVny~Ve~~rvg~~~d~ekL~leI~TnGsI~P~eAl~~Aa~il~~~~~~f~~~~~~~~~~~----~ 234 (306)
T PRK05182 159 IGRIPVDAIFSPVRKVNYTVENTRVGQRTDYDKLVLEIETNGSITPEEALALAAKILVEQLSVFVDLEEEEAEVE----E 234 (306)
T ss_pred CCCEECCCCCCCCEEEEEEEEECCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC----C
T ss_conf 772786755567036889999645588775406999999599799999999999999999999748664554545----5
Q ss_pred CCCHHHHHHHCCHHHCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf 000112333111221011058889898839837188874498888618898864499999999980831267
Q gi|254780237|r 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 (340)
Q Consensus 248 ~~~~~~~~L~~~IeeLeLSvRs~NcLk~a~I~tigdLv~~s~~dLl~ikNfG~KSl~EI~~~L~~~gl~lg~ 319 (340)
T Consensus 235 ~~~~~~~~l~~~IeeLeLSvRs~NcLk~a~I~tI~dLv~~se~dLl~ikNfGkKSl~EI~~kL~~~gl~lgm 306 (306)
T PRK05182 235 EEPEFDPILLRPIEELELSVRSYNCLKRAGINTIGDLVQRTEEELLKTPNLGKKSLEEIKEKLAELGLSLGM 306 (306)
T ss_pred CCCCCCHHHCCCHHHHCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCCCCHHHHHHHHHHCCCCCCC
T ss_conf 665526464496988138688875587859936999874799999618997620399999999972987899