HHsearch alignment for GI: 254780163 and conserved domain: COG3829
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=98.83 E-value=5.8e-07 Score=69.19 Aligned_cols=214 Identities=18% Similarity=0.249 Sum_probs=155.2
Q ss_pred HHHHCHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHC---CCCEEEEEHHHHHCCCCCCHHC
Q ss_conf 6653458999999999877520445657874068861432003889999987304---7733772068861246530110
Q gi|254780163|r 477 TVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFAL---GVQLLRFDMSEYMERHAVSRLI 553 (798)
Q Consensus 477 ~~v~GQ~~ai~~v~~~i~~~~~gl~~~~rP~g~flf~GptGvGKTelak~la~~~---~~~lir~dmsey~e~~~vs~Li 553 (798)
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 CCCCHHCCCCCCCCCCHHHHH-CC-------CEEEEECCHHHCCHHHHHHHHHHHHHHHCC---CCCCCEECCCCEEEEE
Q ss_conf 478000256444310035551-58-------517774044550289999999987775021---7799776125429999
Q gi|254780163|r 554 GAPPGYVGFGQGGILADSVDQ-NP-------YSVVLLDEIEKSHPDVLNILLQIMDYGILT---DQSGKKISFRNVILIM 622 (798)
Q Consensus 554 GappGYvG~~egg~Lte~vr~-~P-------~sVvl~DEiEKAh~~v~~~llqild~G~lt---d~~Gr~vdf~n~iii~ 622 (798)
T Consensus 318 Gy-------e-~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVR---IIA 386 (560)
T COG3829 318 GY-------E-KGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVR---IIA 386 (560)
T ss_pred CC-------C-CCCCCCCCCCCCCCCEEECCCCEEEEHHHCCCCHHHHHHHHHHHHHCEEEECCCCCCEEEEEE---EEE
T ss_conf 76-------7-764246445799760544169837712320399899999999875353785378875356789---994
Q ss_pred ECCCCHHHHHHCCCCCCCCCCHHHHHHHH-HHHCCHHHHCCCCEEEEC-CCC--CHHHHHHHHHHHHHHHHHHHHHCCCE
Q ss_conf 42421455330368988211148899999-872887881776828962-889--99999999999999999999866988
Q gi|254780163|r 623 TTNAGALEMSKARIGFGSSRNDDADKEAL-RNFLSPEFLNRLDSIIPF-FPL--SSDIIRQVVHKFIMKLELQLQEKGIS 698 (798)
Q Consensus 623 TsN~G~~~~~~~~~g~~~~~~~~~~~~~l-~~~f~peflnRid~ii~F-~~l--~~~~~~~i~~~~l~~l~~~l~~~~i~ 698 (798)
T Consensus 387 ATN~nL-------------------~~~i~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~--v 445 (560)
T COG3829 387 ATNRNL-------------------EKMIAEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRN--V 445 (560)
T ss_pred CCCCCH-------------------HHHHHCCCCHHHHEEEECEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCC--C
T ss_conf 257589-------------------9998639616553003040111477723382018999999999999872887--6
Q ss_pred EEECHHHHHHHHHCCCCCCCCCHHHHHHHHHHH
Q ss_conf 999889999999718981015326799999862
Q gi|254780163|r 699 FHFSEEVINWLVSHGYDVKMGARPLERIIKEHV 731 (798)
Q Consensus 699 l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~i 731 (798)
T Consensus 446 ~~ls~~a~~~L~~y~WPG--NVRELeNviER~v 476 (560)
T COG3829 446 KGLSPDALALLLRYDWPG--NVRELENVIERAV 476 (560)
T ss_pred CCCCHHHHHHHHHCCCCC--HHHHHHHHHHHHH
T ss_conf 668999999998689996--0999999999998