HHsearch alignment for GI: 254781218 and conserved domain: COG1508
>COG1508 RpoN DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription].
Probab=96.11 E-value=0.069 Score=31.47 Aligned_cols=102 Identities=20% Similarity=0.207 Sum_probs=69.9
Q ss_pred CCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH-
Q ss_conf 9889999984899999998877998889999999999828999996145322100002321345546777999999999-
Q gi|254781218|r 45 KTQKEMAIGANQLESAVNLFENGMCSTSIRYALYLRNEYEISFDWIYDGEVIDRRYEDVTNKKRLDPYAIGARLKSIRK- 123 (205)
Q Consensus 45 ltQ~elA~~~gis~~~is~~E~G~~~psi~~l~~la~~~~vs~d~Ll~ge~~~~~~~~~~~~~~~d~~~iG~rLk~lR~- 123 (205)
T Consensus 331 L~LrdvA~~i~~HESTISRai~nKy~~tprG~feLk~FFs~~i~s~~gg~~~S-------------~~~Ik~~Ik~lI~~ 397 (444)
T COG1508 331 LVLRDVADEIGMHESTISRAITNKYLATPRGLFELKYFFSSSLASSEGGEASS-------------TEAIKALIKKLIEA 397 (444)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCEEEHHHHHHHHCCCCCCCCCCC-------------HHHHHHHHHHHHHH
T ss_conf 31999998837128889999825410488633448988777416788876444-------------89999999998753
Q ss_pred ---HCCCCHHHHHHHH-----CCCHHHHHHHHCCCCCCCHHHHH
Q ss_conf ---7298389999997-----79999999974148899989999
Q gi|254781218|r 124 ---DKGMSQIEFGKLL-----GMPNSTLSNYEQGRTIPEIKPAR 159 (205)
Q Consensus 124 ---~~glsq~elA~~l-----gis~~tis~~E~g~~~Ps~~~l~ 159 (205)
T Consensus 398 E~~~~pLSD~kIa~lLkekGi~iARRTVAKYRe~L~I~sS~~Rk 441 (444)
T COG1508 398 EDKKKPLSDSKIAELLKEKGIDVARRTVAKYREELNIPSSSQRK 441 (444)
T ss_pred CCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHH
T ss_conf 16778887899999999719842588599999880899565540