HHsearch alignment for GI: 254780877 and conserved domain: COG3829

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=98.67  E-value=2.6e-06  Score=70.20  Aligned_cols=217  Identities=26%  Similarity=0.406  Sum_probs=156.7

Q ss_pred             HHHCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCHHH
Q ss_conf             67459489999999999874101236566512898726786168899999998723776530022447740345320130
Q gi|254780877|r  568 KSVIGQSAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLARLLFDDENSMIRIDMSEYMEKHSVSRLI  647 (853)
Q Consensus       568 ~~v~gq~~ai~~v~~~~~~~~~gl~~~~~p~~~flf~GptGvGKTelak~la~~lf~~~~~lir~dMsey~e~~~vs~Li  647 (853)
T Consensus       245 ~~Iig~S~~m~~~~~~akr~A----~td---stVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELF  317 (560)
T COG3829         245 DDIIGESPAMLRVLELAKRIA----KTD---STVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELF  317 (560)
T ss_pred             HHHCCCCHHHHHHHHHHHHHC----CCC---CCEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHH
T ss_conf             002058999999999998633----899---8289953788668999999874484347980787643388888888872


Q ss_pred             CCCCHHCCCCCCCCCCHHHHC-CC-------CCEEEEHHHHHCCHHHHHHHHHHHHCCEEE---CCCCCEEECCCCEEEE
Q ss_conf             477112035667742113221-56-------410220214414989999999984045788---7999778303315595
Q gi|254780877|r  648 GSPPGYVGYEEGGALTEAVRR-HP-------YQVVLFDEIEKAHSDVHNILLQVLDDGRLT---DSQGRTVDFRNTLIIM  716 (853)
Q Consensus       648 GappGYvG~~~gg~Lte~vr~-~P-------~sVil~DEiEKah~~v~~~llqild~G~lt---d~~G~~v~f~n~iii~  716 (853)
T Consensus       318 G-------ye-~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVR---IIA  386 (560)
T COG3829         318 G-------YE-KGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVR---IIA  386 (560)
T ss_pred             C-------CC-CCCCCCCCCCCCCCCEEECCCCEEEEHHHCCCCHHHHHHHHHHHHHCEEEECCCCCCEEEEEE---EEE
T ss_conf             7-------67-764246445799760544169837712320399899999999875353785378875356789---994


Q ss_pred             CCCHHHHHHHCCHHHHHHHHHHHH-HHHCCHHHHCCCCCEEEC-CCCC--HHHHHHHHHHHHHHHHHHHHHCCCEEE-EC
Q ss_conf             485126876403267999999999-862885772666815862-8899--899999999999999999985798999-98
Q gi|254780877|r  717 TSNLGAEYLIEDGDSVHDKVMGIV-RSAFKPEFLNRLDEIILF-EKLR--KEDMAKIVRIQLGRVLSLIKERNISMD-FD  791 (853)
Q Consensus       717 TsN~G~~~~~~~~~~~~~~~~~~l-~~~f~peflnRid~iv~F-~~l~--~~~~~~i~~~~l~~l~~~l~~~~i~l~-~~  791 (853)
T Consensus       387 ATN~--------------nL~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~---~~~v~~ls  449 (560)
T COG3829         387 ATNR--------------NLEKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRY---GRNVKGLS  449 (560)
T ss_pred             CCCC--------------CHHHHHHCCCCHHHHEEEECEEEECCCCCCCCCCHHHHHHHHHHHHHHHHC---CCCCCCCC
T ss_conf             2575--------------899998639616553003040111477723382018999999999999872---88766689


Q ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             899999997089822062157999998733
Q gi|254780877|r  792 DQVIDWLSCRGYDPSYGARPLKRVIQRYIQ  821 (853)
Q Consensus       792 ~~~~~~l~~~~~~~~~GaR~l~r~i~~~i~  821 (853)
T Consensus       450 ~~a~~~L~~--y~WPGNVRELeNviER~v~  477 (560)
T COG3829         450 PDALALLLR--YDWPGNVRELENVIERAVN  477 (560)
T ss_pred             HHHHHHHHH--CCCCCHHHHHHHHHHHHHH
T ss_conf             999999986--8999609999999999981