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