HHsearch alignment for GI: 254780611 and conserved domain: TIGR02997
>TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family.
Probab=100.00 E-value=0 Score=603.79 Aligned_cols=257 Identities=28% Similarity=0.522 Sum_probs=240.0
Q ss_pred HHHHHHHHHHHCCCCCCHHHHHHHHHHHH----------------H----------------------------------
Q ss_conf 05999999840799999899999999999----------------8----------------------------------
Q gi|254780611|r 14 IGLSRYIHEIRKIPMLEKQEEYVLAKRYR----------------E---------------------------------- 43 (302)
Q Consensus 14 ~~~~~yl~~i~~~~~Lt~eee~~l~~~~~----------------~---------------------------------- 43 (302)
T Consensus 1 D~Vr~YL~eIGRvPLLt~eEEI~LArqVQry~~LLa~r~~~~~~~~~~~l~~~~~~l~~~~g~~ps~~ewA~~~~~~~~~ 80 (336)
T TIGR02997 1 DLVRLYLQEIGRVPLLTPEEEIELARQVQRYEALLAVRDKADEKVQMMALEELREELEEQLGREPSKEEWAAALGLSEAE 80 (336)
T ss_pred CCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHH
T ss_conf 92004445056678987688999989999999998875327889999999988999998508999878999871899889
Q ss_pred -----H--------------------CCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf -----2--------------------859999999994307787565555799998889999998889989862185345
Q gi|254780611|r 44 -----H--------------------GDLSAAHRLVTSHLRLVVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERG 98 (302)
Q Consensus 44 -----~--------------------gd~~Ar~~Li~~nlrlV~~iA~~y~~~g~~~~DLiQeG~iGLi~Ai~kFDp~kG 98 (302)
T Consensus 81 l~~~l~G~~aWA~~a~l~leLk~~~r~G~RAK~kMi~ANLRLVVSvAKKYq~RglElLDLIQEG~lGL~RAVEKFDPtrG 160 (336)
T TIGR02997 81 LRQRLRGLQAWAEAAQLELELKLVLRQGQRAKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRG 160 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf 99998765788998422589999999789999999876022688999985136883356887634312211233577778
Q ss_pred CCHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 68999757789999998532024600110230035899999999788786624478882467788861898321100000
Q gi|254780611|r 99 FRLATYSMWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNC 178 (302)
Q Consensus 99 ~~FsTYA~~wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~ 178 (302)
T Consensus 161 YKFSTYAYWWIRQ~ITRAIA~qSRTIRLPiH~~E-----KLnkiKK~qReL~q~lGR~Ps~~EiAe~lel~~~qvR~~l~ 235 (336)
T TIGR02997 161 YKFSTYAYWWIRQGITRAIANQSRTIRLPIHITE-----KLNKIKKVQRELSQKLGRRPSEAEIAEALELEPEQVRELLQ 235 (336)
T ss_pred CCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCHHH-----HHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHH
T ss_conf 8633012468756889998436883247410766-----66899899899999838897868999883889889999999
Q ss_pred CCCCCCCHHHHC-CCCCCCCCCHHCCCCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCC--CCCC
Q ss_conf 012234335520-2323453200000123-56870565566666667779999996219999999999982788--8889
Q gi|254780611|r 179 RLAGDESLNALI-NSSDKNSSQWQDWLVY-DHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQE--NPVT 254 (302)
Q Consensus 179 ~~~~~~SLd~~i-~~~d~~~~~~~d~l~~-~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~--~~~T 254 (302)
T Consensus 236 ~~~~p~SLd~~VrG~--e~dt~LgdLl~d~~~~~P~~~~~----~~~l~~dL~~lL~~L~p~e~~VL~LRfGL~~~~~~T 309 (336)
T TIGR02997 236 RARQPVSLDTRVRGD--EEDTELGDLLEDEDGESPEEQVE----QESLRQDLESLLAELTPRERQVLRLRFGLDDGEPLT 309 (336)
T ss_pred HHCCCCCCCCCCCCC--CCCCHHHHHCCCCCCCCCHHHHH----HHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCC
T ss_conf 707874457732688--85422654326888998278999----999999999988637988999999857899897532
Q ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHH
Q ss_conf 899999977899999999999999999
Q gi|254780611|r 255 LENLSSEFEVSRERVRQIEARAFKKVQ 281 (302)
Q Consensus 255 l~EIa~~lgiS~eRVrQI~~~AL~kLR 281 (302)
T Consensus 310 L~eiG~~l~lSRERVRQiE~~AL~kLR 336 (336)
T TIGR02997 310 LAEIGERLNLSRERVRQIEAKALRKLR 336 (336)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf 789998838836888899999975349