HHsearch alignment for GI: 254780289 and conserved domain: TIGR02997

>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family.
Probab=100.00  E-value=0  Score=821.59  Aligned_cols=246  Identities=48%  Similarity=0.826  Sum_probs=236.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             32222211268899999987653321124689998755578999887522356777887544367999988743854573
Q gi|254780289|r  415 SISVETGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGY  494 (682)
Q Consensus       415 ~ie~~~gl~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~  494 (682)
T Consensus        90 aWA~~a~l~l-eLk~~-------~r~G~RAK~kMi~ANLRLVVSvAKKYq~RglElLDLIQEG~lGL~RAVEKFDPtrGY  161 (336)
T TIGR02997        90 AWAEAAQLEL-ELKLV-------LRQGQRAKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGY  161 (336)
T ss_pred             HHHHHHHHHH-HHHHH-------HHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             8899842258-99999-------997899999998760226889999851368833568876343122112335777788


Q ss_pred             EEEHHHHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCC
Q ss_conf             12010289899999999972287046142058898999999999877608899978999870999899999998608987
Q gi|254780289|r  495 KFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPI  574 (682)
Q Consensus       495 ~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  574 (682)
T Consensus       162 KFSTYAYWWIRQ~ITRAIA~qSRTIRLPiH~~EKLnkiKK~qReL~q~lGR~Ps~~EiAe~lel~~~qvR~~l~~~~~p~  241 (336)
T TIGR02997       162 KFSTYAYWWIRQGITRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRRPSEAEIAEALELEPEQVRELLQRARQPV  241 (336)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCC
T ss_conf             63301246875688999843688324741076666899899899999838897868999883889889999999707874


Q ss_pred             CCCCCC-CCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCH
Q ss_conf             553635-8899860475623898899899999999999999997329988999999981879867468899989966789
Q gi|254780289|r  575 SLETPI-GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTR  653 (682)
Q Consensus       575 sl~~~~-~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~  653 (682)
T Consensus       242 SLd~~VrG~e~dt~LgdLl~d~~~~~P~~~~~~~~l~~dL~~lL~~L~p~e~~VL~LRfGL~~~~~~TL~eiG~~l~lSR  321 (336)
T TIGR02997       242 SLDTRVRGDEEDTELGDLLEDEDGESPEEQVEQESLRQDLESLLAELTPRERQVLRLRFGLDDGEPLTLAEIGERLNLSR  321 (336)
T ss_pred             CCCCCCCCCCCCCHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCH
T ss_conf             45773268885422654326888998278999999999999988637988999999857899897532789998838836


Q ss_pred             HHHHHHHHHHHHHHC
Q ss_conf             999999999999832
Q gi|254780289|r  654 ERIRQIEAKAIRKLK  668 (682)
Q Consensus       654 er~rqi~~~a~~~l~  668 (682)
T Consensus       322 ERVRQiE~~AL~kLR  336 (336)
T TIGR02997       322 ERVRQIEAKALRKLR  336 (336)
T ss_pred             HHHHHHHHHHHHHCC
T ss_conf             888899999975349