HHsearch alignment for GI: 254780512 and conserved domain: COG1298
>COG1298 FlhA Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion].
Probab=100.00 E-value=0 Score=1821.48 Aligned_cols=683 Identities=45% Similarity=0.743 Sum_probs=649.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 52000000010013458999999999999603847899999999999999999999513770454200489999999998
Q gi|254780512|r 5 LIGISDSNDRNHLHDFAFSFCIVLIICILFLPIPTVLLDVGLASSIALSILILMVALWIEKPLEFSSFPTVLLIVTIIRL 84 (692)
Q Consensus 5 ~~~~~~~~~~~~~~d~~~~~~~~~ii~~~iiPlP~~llD~~~~~ni~~s~lil~~~l~~~~pl~fs~FPslLL~~TlfRL 84 (692)
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~iv~Il~~~ilPlP~~lLD~~l~~nialSvlIll~~~~i~~pldfs~FPTlLL~~TL~RL 85 (696)
T COG1298 6 KLRFPGNLDGLQGKDLAVPLGIVLILAMLILPLPAFLLDFLLTFNIALSVLILLVAMFIQRPLDFSSFPTLLLITTLLRL 85 (696)
T ss_pred HHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 32043312554432023379999999998707978999999999999999999999981883312226689999999998
Q ss_pred HHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHH
Q ss_conf 55488888988437777632678999875145013269999999999999998864575146665545442037603454
Q gi|254780512|r 85 SLNIATTRAILSFGHEGYGAAGGIIAGFSSLVMSGDFVIGLVVFMILITINFIVITKGATRIAEVGARFTLDAIPGKQMA 164 (692)
Q Consensus 85 ~LniasTRlIL~~g~~g~~~AG~vI~aFG~fVvggn~vvG~viF~Il~ivqfiVItkGa~RvaEV~ARFtLDamPGKQMa 164 (692)
T Consensus 86 ~LNvASTR~IL~~G~~---aaG~vI~aFG~fvvgGn~viG~iVFlILiivnFiVITKGA~RIAEV~ARFtLDAmPGKQMa 162 (696)
T COG1298 86 GLNVASTRVILSHGHE---AAGKVIEAFGNFVVGGNFVIGLIVFLILIIVNFIVITKGAERIAEVAARFTLDAMPGKQMA 162 (696)
T ss_pred HHHHHHHHHHHHCCCC---CCCHHHHHHCCEEECCCEEHHHHHHHHHHHHHHEEECCCCHHHHHHHHHHEECCCCCCCHH
T ss_conf 7748878889856864---5528999740215648431699999999886406982683176666553100358764200
Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 78787648999899999999998652222012201345301058999999999888999999973998899999989998
Q gi|254780512|r 165 IDADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVRGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLS 244 (692)
Q Consensus 165 IDaDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVkGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LT 244 (692)
T Consensus 163 IDADLnAGlI~e~eAk~RR~~l~~EadFyGAMDGASKFVkGDAIagiiI~~INIigGl~IG~~q~~m~~~~Aa~~yt~LT 242 (696)
T COG1298 163 IDADLNAGLITEEEAKKRRSELEQEADFYGAMDGASKFVKGDAIAGIIILAINIIGGLLIGVLQHGMSFGEAAETYTLLT 242 (696)
T ss_pred HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHEEEECCCCHHHHHHHEEEEE
T ss_conf 34365348877699999999998752342303674202364489999999999986751101015777788875658987
Q ss_pred HHHHHHHHHHHHHHHHHHHHEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 64578885158999873310266237743058999998761864899999999998615786478999999999999998
Q gi|254780512|r 245 VGDGLVSQVPALIISLSAAFLVSRTTSKGSTNTAIVEQLSHYPRALLISAFFMIVLSVMPNLPAFPFIMLGGFFACAGFY 324 (692)
Q Consensus 245 IGDGLVsQIPaLliS~aaGiiVTRvss~~~lg~~i~~Ql~~~p~aL~iaa~~l~~lglvPGmP~~~Fl~la~~l~~~a~~ 324 (692)
T Consensus 243 IGDGLVsQIPALliStAagiiVTR~~~~~s~gq~l~~ql~~~p~~l~i~a~~l~~lg~iPG~P~~~f~~la~~l~~~~~~ 322 (696)
T COG1298 243 IGDGLVSQIPALLISTAAGIIVTRVSTDESLGQQLFTQLFANPKVLLIAAGVLFLLGLIPGMPHLPFLLLAGLLAFLAYL 322 (696)
T ss_pred ECCHHHHHHHHHHHHHHHHEEEEECCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 74217877479999865644888436752368999999970951799999999999737898336999999999999998
Q ss_pred HHHHHHHHHHHH--HHHCC--CCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 864432222100--11000--2356676753001002460122101-111123457552688999999999998098788
Q gi|254780512|r 325 VPYKNELQRLAK--VAQIQ--EASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVP 399 (692)
Q Consensus 325 ~~r~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP 399 (692)
T Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~v~~~~~iele~Gy~lipl~d~~qggeLl~RI~~iRk~~a~elG~v~P 402 (696)
T COG1298 323 LSKRKEQQAEEKEKPAEEAKKEEEEEEEESVDDVLLIDPIELELGYGLIPLVDEQQGGELLDRIRGIRKKIAQELGFVVP 402 (696)
T ss_pred HHHCCCHHHHHHCCHHHHHHHHHCCCCCCCCCCCCCCCCCEEEECCCEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf 64001002322000123322100002543301145565220011432453125123551999999999999996596676
Q ss_pred CEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEEC
Q ss_conf 32445437789871699974824534884178341330588876788741014766883034397884588828990705
Q gi|254780512|r 400 EIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPID 479 (692)
Q Consensus 400 ~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvd 479 (692)
T Consensus 403 ~IrIrDN~~L~p~~Y~ikikG~eVa~gel~~g~~Lai~~g~~~~~i~G~~t~ePaFGl~a~WI~~~~ke~A~~~GYtVvd 482 (696)
T COG1298 403 VIRIRDNLRLKPNSYRIKIKGVEVASGELRPGKLLAINPGGVTGEIPGEETKDPAFGLPAYWIEEDQKEEAQILGYTVVD 482 (696)
T ss_pred EEEEECCCCCCCCCEEEEEEEEEEEECCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCEEECCCHHHHHHHHCCCEEEC
T ss_conf 27984255679877079995389750322578278764877678888842467778996032171145689865975614
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 88999999999999879998729999999999766648999986311599899999999999749865469999999987
Q gi|254780512|r 480 NLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAE 559 (692)
Q Consensus 480 p~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad 559 (692)
T Consensus 483 ~~sVi~THl~evir~~a~eLl~rqevq~Lld~l~~~~p~lvEei~p~~is~s~iqkVLq~LL~E~VsIRdl~tIlEtlad 562 (696)
T COG1298 483 PSSVIATHLSEVIRNHAHELLGRQEVQQLLDRLAEEYPKLVEEIVPKKISLSTLQKVLQNLLKERVSIRDLPTILETLAD 562 (696)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
T ss_conf 14777986899999758988679999999998777717889986647667899999999998658753108999999987
Q ss_pred HHCCCCCHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 5335799899999999998999865207-788489998887899999998303777884645669889999999999999
Q gi|254780512|r 560 VAPHSRKTSHIVEQVRIRMAQQICGDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSI 638 (692)
Q Consensus 560 ~a~~~kD~~~LtE~VR~aL~R~I~~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~ 638 (692)
T Consensus 563 ~a~~~kd~~~L~e~VR~~L~r~I~~~~~~~~~~L~VitL~~~~E~~l~~s~~~~~~~~--~~~i~p~~~~~l~~~v~~~~ 640 (696)
T COG1298 563 YAPITKDPDELTEKVRQALGRQITQQLLDENGELEVITLDPSLEQLLLNSLQKGGELD--ELPLDPDLLEKLIRQVKEEL 640 (696)
T ss_pred HCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHCCCCCC--CCCCCHHHHHHHHHHHHHHH
T ss_conf 5546899899999999999999999863769806999958279999999885057655--55678678999999999999
Q ss_pred HHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf 999956998799828335489999988644898189440178996579888609
Q gi|254780512|r 639 RQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS 692 (692)
Q Consensus 639 ~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is 692 (692)
T Consensus 641 ~~~~~~G~~~VLl~s~~~R~~~~~~~~r~~p~l~VLS~~Ei~~~~~i~~~g~V~ 694 (696)
T COG1298 641 ERVEQKGFPPVLLVSPELRPYLRRILERYFPDLVVLSHNELPDNIEIKILGTVS 694 (696)
T ss_pred HHHHHCCCCEEEEECCCHHHHHHHHHHHHCCCCEEEEHHHCCCCCEEEEEEEEC
T ss_conf 999856998599957231899999998737997896442248997479998624