HHsearch alignment for GI: 254780289 and conserved domain: COG0568
>COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription].
Probab=100.00 E-value=0 Score=669.59 Aligned_cols=267 Identities=56% Similarity=0.881 Sum_probs=258.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 33222221126889999998765332112468999875557899988752235677788754436799998874385457
Q gi|254780289|r 414 KSISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLG 493 (682)
Q Consensus 414 ~~ie~~~gl~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g 493 (682)
T Consensus 74 ~~~~~~~~l~~~Ee~~la~~~~~g~~-~~~Ak~klv~snLRlVvsIAk~Y~~rGL~~~DLIQEGniGLmkAVekFdp~rG 152 (342)
T COG0568 74 RAIEAAPLLTPEEEKALARRLKRGER-DLDAKKKLVESNLRLVVSIAKKYTGRGLPFLDLIQEGNIGLMKAVEKFDPEKG 152 (342)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHCCCCCC
T ss_conf 88764001597899999999985885-59999999999889999999986337986889885250999999996296668
Q ss_pred CEEEHHHHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf 31201028989999999997228704614205889899999999987760889997899987099989999999860898
Q gi|254780289|r 494 YKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEP 573 (682)
Q Consensus 494 ~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~ 573 (682)
T Consensus 153 ~kFsTYA~wWIrqaI~raI~~q~rtIRipvh~~e~~nkl~r~~r~l~q~~~r~p~~eeia~~l~~~~~~V~~m~~~~~~~ 232 (342)
T COG0568 153 FKFSTYATWWIRQAITRAIADQARTIRIPVHQVELINKLRRVKRELLQELGREPTPEEIAEELGVSPDKVREMLKRASEP 232 (342)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHCCCC
T ss_conf 72110999999999999999742346576999999999999999999984589979999999599999999999865367
Q ss_pred CCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCC
Q ss_conf 7553635889986047562389889989999999999999999732-998899999998187986746889998996678
Q gi|254780289|r 574 ISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLAS-LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVT 652 (682)
Q Consensus 574 ~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~-l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~ 652 (682)
T Consensus 233 ~SLd~~ig~ded~~l~d~leD~~~~~p~~~~~~~~~~~~~~~~L~~~Lt~rE~~Vi~~R~gl~~~~~~TLeevg~~~~vs 312 (342)
T COG0568 233 ISLDTPIGDDEDSELGDFLEDDKSVSPEDAVERESLKEDLNEVLAEALTERERRVIRLRFGLDDGEPKTLEELGEEFGIS 312 (342)
T ss_pred CCCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCC
T ss_conf 67678488885207888764268789899999888999999998715999999999999556799955199999895986
Q ss_pred HHHHHHHHHHHHHHHC-CHHHHHHHHHHHC
Q ss_conf 9999999999999832-9677787566517
Q gi|254780289|r 653 RERIRQIEAKAIRKLK-HPSRSKKLRSFLD 681 (682)
Q Consensus 653 ~er~rqi~~~a~~~l~-~~~~~~~l~~~~~ 681 (682)
T Consensus 313 rERvRQIE~kAl~KLr~~~~~~~~~~~~l~ 342 (342)
T COG0568 313 RERVRQIEAKALRKLRRHPERSALLRSYLD 342 (342)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 999999999999999870632227777539