HHsearch alignment for GI: 254780690 and conserved domain: PRK12772
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional.
Probab=95.30 E-value=0.35 Score=29.87 Aligned_cols=289 Identities=16% Similarity=0.167 Sum_probs=148.3
Q ss_pred CCCCCCCCCCCCCCHHHHHH---HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHCCH
Q ss_conf 98767877686658787999---998578751335999999999999999999999999999999997200-01210497
Q gi|254780690|r 2 SENDAPDNKTEAPSSKKIED---ALNEGNAPISREASLFSSILACLIYLLFFFSPGIYSVTSDLHVLLASA-TQRKLEDI 77 (354)
Q Consensus 2 Ae~d~~~eKTE~PT~kRL~d---ARekGqV~kS~el~~~~~ll~~~~~l~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~ 77 (354)
T Consensus 261 asdEKTE~pTpKkl~dARkkGqVakS~e-l~~--a~~ll~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~ 335 (609)
T PRK12772 261 ASDDKTEEATPKKKSDARKKGQVAKSKE-VAL--AITLLACTLVLSALGEYVANTLKETMIYFLNNYLNMNLNYLNL--N 335 (609)
T ss_pred CCCCCCCCCCHHHHHHHHHCCCCCCHHH-HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHH--H
T ss_conf 4877789998156998985789877274-999--9999999999999999999999999999985330024787889--9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHCCCHHHCCC--CCCCCCHHHHHHHCCCHHHHHHHHHHH
Q ss_conf 98999999999999999999999999887768785---3210137121377--910169343033201266799999999
Q gi|254780690|r 78 SHIVFLLTHLSLSASRLVIPGLLLFMMFGIGSYLI---QRIPVLNLNHVKP--SFKRVSLREGIKRIYSINNLVNFMKSF 152 (354)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~p~~~~~~l~~i~~~l~---q~G~~fs~k~l~p--k~~rlNPi~GlKriFS~k~lvel~Ksl 152 (354)
T Consensus 336 ~~~~~~~~~~~~~~~P~~~~~~~~~i~a~~~Q~G~~fs~~~l~Pk~~klnPi~G~KriFS~~~l~El-----~KsllK~~ 410 (609)
T PRK12772 336 SLIIFTLLRVGKIFLPVALPIMVFGIAANLLQTGFLFTKEPLKPDLKKLNPINGFKRMFSMRTVMEL-----LKDLVIIT 410 (609)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEECCCCCCCCHHHCCHHHHHHHHHCHHHHHHH-----HHHHHHHH
T ss_conf 9999999999999999999999999999986016341530158862644887789998178889999-----99999999
Q ss_pred HHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCHHHHHH
Q ss_conf 99999999999999832156897840897999999999999999999999999999766799999998-40699899999
Q gi|254780690|r 153 VKIILVGTIITISLTENYFTMLDFISANPHSILYHAFFTVRKVLIMILLFIATLTVLDIGWSYHQWYS-KLKMSKQEIKD 231 (354)
Q Consensus 153 lKv~li~~v~~~~i~~~~~~l~~l~~~~~~~~l~~~~~~~~~l~~~~~~~~~via~iD~~~qr~~~~k-~lkMskqEvK~ 231 (354)
T Consensus 411 ~v~~v~y~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~lvia~~D~~~Q~~~~~k~lkMskqEvK~E~K~ 489 (609)
T PRK12772 411 VVGIVGYKFLQ-DNYLDILNLGNLRLPYLITGLLSLVISIFFRITLIMIIIAVADYVYQKYQYNKDLKMTKQEVKEEYKQ 489 (609)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 99999999999-99999998743899999999999999999999999999999999999999999768989999989875
Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHH-------------------CCCCCEEEEC-CCCEEEEEEECCCCCCCCEE
Q ss_conf 975448998999999999999999889860-------------------7768699873-55307888976888888889
Q gi|254780690|r 232 EIKQSYGNPIIKNRQKSIARSRIRHKMMEA-------------------TSRATIIITN-PTHYALALRYIQTENDAPVL 291 (354)
Q Consensus 232 E~K~~EGdP~iK~~~r~~~re~~~~~~~~~-------------------V~~A~vvitN-PTH~AVAL~Y~~~~~~aP~v 291 (354)
T Consensus 490 ~EGdP~iK~r~Rq~~re~a~~rm~~~Vp~AdVVitNPTH~AVALkYd~~~~~AP~VvAKG~d~~A~~IreiA~e~~vPiv 569 (609)
T PRK12772 490 DEGDPQIKSKIKQKQREMAMQRMMQEVPDATVVVTNPTHIAVALKYEKGKDTAPKVVAKGADYVALKIKEIAKENEVPII 569 (609)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCHHHEEEEECCCCCCCCEEEEECCCHHHHHHHHHHHHCCCCEE
T ss_conf 53999999999999999998678731898998988733364043436899999988861785999999999998699876
Q ss_pred EEECCCHHHHHHH
Q ss_conf 9807658999999
Q gi|254780690|r 292 VAKGQNLIAKKMR 304 (354)
Q Consensus 292 vaKG~~~~A~~Ir 304 (354)
T Consensus 570 en~---pLARaLy 579 (609)
T PRK12772 570 ENK---PLARLIY 579 (609)
T ss_pred CCH---HHHHHHH
T ss_conf 182---9899999