HHsearch alignment for GI: peg_472 and conserved domain: COG3604

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms].
Probab=96.16  E-value=0.033  Score=36.45  Aligned_cols=203  Identities=20%  Similarity=0.258  Sum_probs=106.8

Q ss_pred             CCCHHHHHHHHHHHHH---CCCCCEEEHHCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCC-CCCCCHHHHHHHC--CCC
Q ss_conf             9284899999999998---287670620107879888899999999961468777886658-7899977999977--987
Q 537021.9.peg.4    1 MIGQKPMIKTLTNAFK---SGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVE-FEGFGEHCQAIIR--GNH   74 (369)
Q Consensus         1 iiGq~~~~~~l~~~~~---~~~~~ha~lf~G~~G~GK~~~a~~~A~~l~c~~~~~~~~~~~-~c~~c~~c~~i~~--~~~   74 (369)
T Consensus       225 iIG~S~am~~ll~~i~~VA~Sd~t--VLi~GETGtGKElvAraIH~~----S~R~~kPfV~~NCAAlPes-LlESELFGH  297 (550)
T COG3604         225 IIGRSPAMRQLLKEIEVVAKSDST--VLIRGETGTGKELVARAIHQL----SPRRDKPFVKLNCAALPES-LLESELFGH  297 (550)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCE--EEEECCCCCCHHHHHHHHHHH----CCCCCCCCEEEECCCCCHH-HHHHHHHCC
T ss_conf             230699999999999987268980--798458885389999999873----7555798666312225378-888887453


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECHHHCCCCHHHHHHHHHHHCC-----------CCCCEEEEE
Q ss_conf             782224533223345556655544565420465237751156648001678999997212-----------211146650
Q 537021.9.peg.4   75 VDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPP-----------PHVKFIFAT  143 (369)
Q Consensus        75 ~d~~e~~~~s~~~id~ir~l~~~~~~~p~~~~~kv~iid~a~~m~~~a~NaLLK~lEEPp-----------~~~~fil~t  143 (369)
T Consensus       298 ----eK-GAF-TGA~~~r--~G--rFElAdG--GTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAA-  364 (550)
T COG3604         298 ----EK-GAF-TGAINTR--RG--RFELADG--GTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAA-  364 (550)
T ss_pred             ----CC-CCC-CCCHHCC--CC--CEEECCC--CEEECHHHCCCCHHHHHHHHHHHHHCCEEECCCCCEEEEEEEEEEC-
T ss_conf             ----32-233-3510146--76--3565579--7576022036787788999999863652534799636777899821-


Q ss_pred             CCCC--------CCCHHHHHHHHHHHC--CCCCC--HHH----HHHHHHHHHHCC---CCCCHHHHHHHHHC-CCCCCCH
Q ss_conf             6754--------330356754333210--24540--013----567876431013---45625664456531-6764200
Q 537021.9.peg.4  144 TEIR--------KIPITVLSRCQRFDL--HRISI--GDL----IELFTKILQEES---IEFDPEAVAMIARA-SDGSARD  203 (369)
Q Consensus       144 ~~~~--------~ll~TI~SRcq~~~f--~~l~~--~~i----~~~L~~i~~~E~---i~~d~~~l~~ia~~-s~GslR~  203 (369)
T Consensus       365 TNRDL~~~V~~G~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRE  444 (550)
T COG3604         365 TNRDLEEMVRDGEFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRE  444 (550)
T ss_pred             CCHHHHHHHHCCCCHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCHHH
T ss_conf             35309999874951554532102001378983458866799999999999886397640339899999973999971999


Q ss_pred             HHHCCCCCCCHHHCCCCHHH
Q ss_conf             11000111000000121032
Q 537021.9.peg.4  204 GLSLLDQAIARCNDKIVTSS  223 (369)
Q Consensus       204 Al~lLeq~i~~~~~~i~~e~  223 (369)
T Consensus       445 Len~veRavlla~~~~~~~d  464 (550)
T COG3604         445 LENVVERAVLLAGRLTRRGD  464 (550)
T ss_pred             HHHHHHHHHHHCCCCCCCCC
T ss_conf             99899999997047677765