HHsearch alignment for GI: 254780332 and conserved domain: PRK12724
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional.
Probab=97.42 E-value=0.0073 Score=41.28 Aligned_cols=117 Identities=19% Similarity=0.323 Sum_probs=68.7
Q ss_pred CCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 77267762131002769999999999851011123333321247975899958521799987899998741011000121
Q gi|254780332|r 218 RSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGE 297 (504)
Q Consensus 218 ~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~el~~R~is~~s~I~~~~i~~g~ 297 (504)
T Consensus 222 ~~kvi~lVGPTGVGKTTTiAKLAA~~~l--------------~~~kkVaLIT~D------TYRIgA-------------- 267 (432)
T PRK12724 222 QRKVVFFVGPTGSGKTTSIAKLAAKYFL--------------HMGKSVSLYTTD------NYRIAA-------------- 267 (432)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHH--------------HCCCEEEEEECC------CCCHHH--------------
T ss_conf 7629999899998889999999999999--------------749927999526------653779--------------
Q ss_pred CCHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEECCHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 37688998999999986278078258998899999988640224447467767135325664432113788999999999
Q gi|254780332|r 298 LTRPDYEKIVACSQVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTSKKIEENRVLEITGITMALK 377 (504)
Q Consensus 298 l~~~e~~~i~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~gi~~vvIDYLqli~~~~~~~~~r~~~i~~is~~lK 377 (504)
T Consensus 268 -----vEQLktYa-~Il~iPv~vv~----~~~el~~al---~~-~~~DlILID------TAGrS~rd~-~~~----~eL~ 322 (432)
T PRK12724 268 -----IEQLKRYA-DTMGMPFYPVK----DIKKFKETL---AR-DGSELILID------TAGYSHRNL-EQL----ERMQ 322 (432)
T ss_pred -----HHHHHHHH-HHHCCCEEEEE----CHHHHHHHH---HH-CCCCEEEEE------CCCCCCCCH-HHH----HHHH
T ss_conf -----99999999-98599459951----899999999---85-699999992------999897899-999----9999
Q ss_pred HHHHH----HCC-CEEEEEEC
Q ss_conf 99988----279-19997713
Q gi|254780332|r 378 ALAKE----LNI-PIIALSQL 393 (504)
Q Consensus 378 ~lA~e----~~i-pvi~lsQL 393 (504)
T Consensus 323 ~ll~~~~~~~~ie~~LVLSaT 343 (432)
T PRK12724 323 SFYSCFGEKDSVENLLVLSST 343 (432)
T ss_pred HHHHHHCCCCCCEEEEEEECC
T ss_conf 999863667885179999788