HHsearch alignment for GI: 254780511 and conserved domain: COG1684
>COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion].
Probab=100.00 E-value=0 Score=373.33 Aligned_cols=241 Identities=30% Similarity=0.507 Sum_probs=231.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 83699999999999999999998552788862889999999999999952144456000122068999999999999999
Q gi|254780511|r 4 SPEIIMMSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVH 83 (248)
Q Consensus 4 ~~~~~l~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~l 83 (248)
T Consensus 7 ~~~~~v~~~~l~f~Rv~afl~~~P~~s~~~IP~~vrl~lal~ls~~v~p~l~~-~p~--~~~~~~~~ll~~~EiliG~~~ 83 (258)
T COG1684 7 QLEEWVLAFFLPFVRVLAFLMTMPFFSERSIPARVRLGLALALSFAVLPLLPA-VPA--PLFSLEFLLLALSEILIGLAL 83 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCC-CCC--CCCCHHHHHHHHHHHHHHHHH
T ss_conf 76899999999999999999982010556553789999999999999945767-885--434488999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 99999999999999999999875422202688887530169999999999999994518999999999997555665568
Q gi|254780511|r 84 GLLIRVYTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFYALVKSYGTIPIGQELN 163 (248)
Q Consensus 84 G~~~~i~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~~l~~Sf~~iP~g~~~~ 163 (248)
T Consensus 84 G~~~~l~f~a~~~aG~~i~~qmGls~a~~~Dp~~~~~~~~l~~~l~~~all~fl~~dgh~~li~~l~~Sf~~~Pv~~~~~ 163 (258)
T COG1684 84 GFFAQLLFAALQFAGEIISMQMGLSFATMVDPSSGEQSPLLGQFLNFLALLLFLSLDGHLLLILGLVDSFKALPVGGFFL 163 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHEEECCCCCC
T ss_conf 99999999999999999999872242024688788763399999999999999990775999999998732200466667
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 57999999999999999999999999999999999999999853325489999999999999999999999999999999
Q gi|254780511|r 164 FGNIFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSF 243 (248)
Q Consensus 164 ~~~~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f 243 (248)
T Consensus 164 ~~~~~~~l~~~l~~~F~~~l~iAlPii~~lLlvnlalGlv~R~~PQinvf~ig~Pl~i~~Gl~lL~~~lp~i~~~~~~~~ 243 (258)
T COG1684 164 NDNAFLLLAKALSAIFLIGLRLALPIIALLLLVNLALGLLNRLAPQLNVFFIGFPLKIAVGLLLLYLILPLIAPVFKHLF 243 (258)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 74099999999999999999999899999999999999998425420068755319999999999999999999999999
Q ss_pred HHHC
Q ss_conf 9504
Q gi|254780511|r 244 LYGF 247 (248)
Q Consensus 244 ~~~f 247 (248)
T Consensus 244 ~~~~ 247 (258)
T COG1684 244 SELF 247 (258)
T ss_pred HHHH
T ss_conf 9999