HHsearch alignment for GI: 254780530 and conserved domain: COG1317

>COG1317 FliH Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion].
Probab=96.75  E-value=0.056  Score=33.15  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=63.1

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             23335789999999999999999999999999999999999999999999999999999999999999999989999999
Q gi|254780530|r   40 SIADFQKEQDKAYQEGYNKAIHDRELYWKSKNDFIQRSHDNEIADLRELFESSTSKAIAIAVRDSFKCFSDSLECEVIRI  119 (216)
Q Consensus        40 ~~iDveaer~eAya~G~a~a~~e~~~~~e~e~~~l~~~Ha~eLeelR~~~~ee~A~~IA~~i~e~~~~le~~Is~~vArI  119 (216)
T Consensus        60 ~~~~i~~~~~e~~eeg~q~G~~eG~~~g~~~~~-~~e~~~~li~~~~------------~~~~~~~~~~e~qLv~lvl~i  126 (234)
T COG1317          60 LQEGIEEGAREGYEEGFQLGYEEGFEEGQEEGR-VLERLAKLIAEFQ------------AELEALKEVVEKQLVQLVLEI  126 (234)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999999999998888778-9999999999999------------999999999999999999999


Q ss_pred             HHHHHHHHHHH--HHHHHHHH-HHHHHHCCCCCCEEEEECCHHHHHHHHHHCCCCCCC
Q ss_conf             99998779999--99999999-999995046876188848889999999845875000
Q gi|254780530|r  120 LKSVLDIGLSR--KAAIEFAA-VVVDFLKKGDCGKIVIHGPKNLHSLIEECLGEYSSA  174 (216)
Q Consensus       120 L~PvL~e~l~~--qAv~~la~-~i~~~~~dg~~~~I~V~GP~~L~e~L~~~Lg~~~~~  174 (216)
T Consensus       127 a~~Vi~~~~~~~~~~ll~~v~e~L~~~~~~~~~i~l--~VnP~d~e~i~~~~~~~~~~  182 (234)
T COG1317         127 ARKVIGKELELDPEALLAAVREALEEVPLFAAAITL--RVNPDDLEIIRQQLDEELSL  182 (234)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEE--EECHHHHHHHHHHHHHHHHH
T ss_conf             999985653128899999999999971166667389--98888899999998888742