HHsearch alignment for GI: 254780689 and conserved domain: COG1536
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion].
Probab=100.00 E-value=0 Score=549.87 Aligned_cols=318 Identities=27% Similarity=0.494 Sum_probs=304.5
Q ss_pred CCHHHHHHHHHHHHCCHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCC-CCHHHHHHHHHH
Q ss_conf 6868799999998381468999851999999999999861389998999999999999985104566-534889999761
Q gi|254780689|r 22 LTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIGLT-ENSKNIESILEE 100 (345)
Q Consensus 22 Ltg~eKAAilLl~LGee~Aa~ilk~l~~~Ei~~i~~~m~~l~~i~~~~~~~vl~EF~~~~~~~~~~~-g~~~~~~~lL~~ 100 (345)
T Consensus 11 Lt~~~KaAilLlslGe~~aa~vlk~l~~~eiq~l~~~~a~lk~v~~~~~~~il~eF~~~~~~~~~i~~~~~~~~~~lL~k 90 (339)
T COG1536 11 LTGTEKAAILLLALGEEIAAEVLKHLSPEEIQRLSTEMATLKTVSPEEKEQVLEEFEELFTEQAGINKGADEYARELLEK 90 (339)
T ss_pred CCHHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf 65767999999980979999999858998999999999855589999999999999999985000123719999999998
Q ss_pred CCCHHHHHHHHHHHHCCCCCC-CCHHHHHHCCCHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf 149799999975441134456-7567897419989999998403864788999957888999999837989999999998
Q gi|254780689|r 101 GLEQNELEKLLNKSDISQENN-NSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRT 179 (345)
Q Consensus 101 al~~d~a~~ll~~~~~~~~~~-~~~~~~L~~~~~~~La~~L~~EhPQtiAlILs~L~~~~Aa~VL~~Lp~e~r~ev~~Ri 179 (345)
T Consensus 91 alg~~~a~~i~~~i~--~~~~~~~~~~~l~~~~p~~l~~~i~~EhPQtia~iLs~L~~~~aa~vL~~l~~e~r~~v~~Ri 168 (339)
T COG1536 91 ALGEEKAESLLERIT--GSAIQTSPFDLLRKLDPSQLADLIKNEHPQTIALILSYLPPDQAAEILSTLPEELRADVVKRI 168 (339)
T ss_pred HCCHHHHHHHHHHHH--HCCCCCCHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf 576768999997754--201213277775017899999998712518899999815877789999859998999999998
Q ss_pred HHCCCCCHHHHHHHHHHHHHHHCCC---CCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Q ss_conf 4048999899999999999972234---4212363789999950177577999999999865999999997415789985
Q gi|254780689|r 180 VNLPKISPYIQKTIEKCIVEMLPQS---NSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLI 256 (345)
Q Consensus 180 a~l~~v~~ev~~~ie~~L~~~l~~~---~~~~~~G~~~vA~Iln~l~~~~~~~iL~~L~~~d~~la~~Ir~~mF~FeDl~ 256 (345)
T Consensus 169 a~l~~v~p~al~~i~~~l~~~l~~~~~~~~~~~gg~~~~aeIlN~~d~~~e~~il~~l~~~~~~la~~I~~kmF~Fedi~ 248 (339)
T COG1536 169 ATLEGVSPEALAELENVLEKKLQSLVNEDYSKLGGIKAAAEILNLLDRGTEKTILESLEEEDPELAEEIKEKMFVFEDIV 248 (339)
T ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
T ss_conf 71126998999999999999987520300002563868999998444668999999876328878999999872199887
Q ss_pred CCCHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 09978999998309888999985388989999999610089999999998500589998999999999999999999869
Q gi|254780689|r 257 TLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPREVAMARRSIVQEAISLLKTN 336 (345)
Q Consensus 257 ~l~~~~l~~ll~evd~~~l~~ALkga~~e~~e~il~nmS~Ra~~~l~eel~~~~g~v~~~dve~Aq~~I~~~~r~L~~~G 336 (345)
T Consensus 249 ~ldd~~iq~lL~~v~~~~La~aLkg~~~~lrekilsnmskR~~e~i~~el~~~-gpi~~~dve~aq~~il~~~r~l~~~G 327 (339)
T COG1536 249 LLDDRSIQRLLREVDKEDLAIALKGASEELREKILSNMSKRAAEMLKEELEFL-GPVRLSDVETAQKAILNIVRRLAESG 327 (339)
T ss_pred HCCHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 45689999999873878999998179889999999844599999999876503-88538888999999999999999779
Q ss_pred CEECCC
Q ss_conf 795188
Q gi|254780689|r 337 KIELSN 342 (345)
Q Consensus 337 ~I~l~~ 342 (345)
T Consensus 328 ~I~i~~ 333 (339)
T COG1536 328 EIVIKR 333 (339)
T ss_pred CEEECC
T ss_conf 877367