HHsearch alignment for GI: 254780237 and conserved domain: smart00662
>smart00662 RPOLD RNA polymerases D. DNA-directed RNA polymerase subunit D and bacterial alpha chain
Probab=100.00 E-value=0 Score=335.61 Aligned_cols=195 Identities=40% Similarity=0.639 Sum_probs=179.3
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHCCCEEEECCC-------
Q ss_conf 5899996169756678889999987416983068899988714431466462444999998401141777279-------
Q gi|254780237|r 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD------- 99 (340)
Q Consensus 27 ~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~EDV~eIiLNLK~I~~k~~~~------- 99 (340)
T Consensus 1 ~~kF~l~~----~~~tiaNALRR~lLseip~~AI~~V~I~~------n~s~l~eevl~~rL~Lipi~~~~~~~~~~~~~~ 70 (224)
T smart00662 1 RAKFVLEP----YGLTLANALRRVLLSSVPGMAVTEVEIEG------NTSGVQDEVLAHRLGLKPLASDPDGDEYQRDCE 70 (224)
T ss_pred CCEEEEEC----CCCHHHHHHHHHHHHCCCCEEEEEEEEEE------CCCCCHHHHHHHHHCCCEEEEECCCCCCCCCCC
T ss_conf 96899968----87157999999998659540579999980------898864679999846830687424444443322
Q ss_pred -------CCEEEEEEEECCEEEEEEEEECC--CCEEEECCCEEEEEECCCCEEEEEEEEECCCCCEECCCCCC---CCCC
Q ss_conf -------82799999944716996335138--98599888808999778964999999746876320344446---5575
Q gi|254780237|r 100 -------SHKRVTIFKRGPGVVTAGDIQTV--NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDP 167 (340)
Q Consensus 100 -------~~~~~~l~~~Gp~~vtA~Di~~p--~~veivNpd~~IaTl~~~~~l~iel~ie~G~GY~~~e~~~~---~~~~ 167 (340)
T Consensus 71 ~~~~~~~~~v~~~L~~~gp~~V~a~Dl~~~~~~~v~~vn~~i~I~~L~~gq~l~~~~~~~~G~G~~hak~~p~~~~~~~~ 150 (224)
T smart00662 71 CEEGCEKCSVTLTLDVKGPGEVTAGDLKSDSDPDVEIVNPDIPIAKLREGQELELEARAEKGRGYVHAKWSPVSTVEYRY 150 (224)
T ss_pred CCCCCCCCEEEEEEEEECCCEEEHHHCCCCCCCCCEECCCCEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCC
T ss_conf 24578773699999985464468566104788971760899089996799759999999956721102106666433442
Q ss_pred CCEECCCCCHHEEEEEEEEEEEECCCCCCC----------CCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 430212431111442235776411688776----------2189999993896177799999999999988876
Q gi|254780237|r 168 IGLITIDALYSPIKKVSYTVESAREGQVLD----------YDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 (340)
Q Consensus 168 ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~----------~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f 231 (340)
T Consensus 151 ~~~i~id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~f~IeT~Gsi~p~~al~~A~~iL~~kl~~f 224 (224)
T smart00662 151 IPRIPVDASFSPVDRVAYQVECPRVVQRTDCCRECDEGEEYDKLIFDVETNGSLKPEEAVLEAAKILKEKLEAF 224 (224)
T ss_pred CCEEEECCCCCHHHEEEEEEECCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHCC
T ss_conf 20354025227012353244267553424443000135888779999995787499999999999999997539