HHsearch alignment for GI: 254780611 and conserved domain: COG1508
>COG1508 RpoN DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription].
Probab=93.81 E-value=0.55 Score=26.11 Aligned_cols=57 Identities=11% Similarity=0.272 Sum_probs=35.2
Q ss_pred HHCCCHHHHHHHH-------HH--HC-CC----CCCCHHHHHHHHCCCHHHHHHHHHH-------HHHHHHHHHHHHH
Q ss_conf 6219999999999-------98--27-88----8889899999977899999999999-------9999999999740
Q gi|254780611|r 232 MSVLNPRERRIFE-------AR--RL-QE----NPVTLENLSSEFEVSRERVRQIEAR-------AFKKVQESIQKQV 288 (302)
Q Consensus 232 l~~L~~rEr~II~-------~r--y~-~~----~~~Tl~EIa~~lgiS~eRVrQI~~~-------AL~kLR~~l~~~~ 288 (302)
T Consensus 296 iksL~qR~~TLlkV~~~Iv~~Q~~Ff~~g~~~l~PL~LrdvA~~i~~HESTISRai~nKy~~tprG~feLk~FFs~~i 373 (444)
T COG1508 296 IKSLEQREETLLKVAEEIVEYQKAFFEGGEEALKPLVLRDVADEIGMHESTISRAITNKYLATPRGLFELKYFFSSSL 373 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCCCEEEHHHHHHHHC
T ss_conf 999999999999999999999999983785457763199999883712888999982541048863344898877741