HHsearch alignment for GI: 254780903 and conserved domain: COG3829
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=97.98 E-value=0.0016 Score=43.32 Aligned_cols=161 Identities=12% Similarity=0.131 Sum_probs=113.9
Q ss_pred HHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECC
Q ss_conf 99972259745989768978999788997729994330589889997608120589999999972489848999998869
Q gi|254780903|r 258 ETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHA 337 (766)
Q Consensus 258 ~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~ 337 (766)
T Consensus 4 ~~~l~~~~~~~~vi~~~~~~~~~~~~a~~~~~~~~~~~i-~~-~~~~i~~~~~~~~v~--------~~~~~~~~~~~~~~ 73 (560)
T COG3829 4 EGILKSILDGPVVIDKNTGIDVANALALAKRQKNAEAVI-GR-PLREILETLGMERVE--------QSRDKELTERLKLK 73 (560)
T ss_pred HHHHHHCCCCEEEEECCCCEEEECHHHHHHHHCCEEEEE-CC-CHHHHHCCCCCCEEE--------CCCCCCEEEEEECC
T ss_conf 445665046408997177547603377765105447874-23-411111125862341--------06765201355406
Q ss_pred CCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHH-HHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHH
Q ss_conf 898899889999998379606-9999984461799999999-99999999999854455158834996997017898883
Q gi|254780903|r 338 SGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRY-AEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAY 415 (766)
Q Consensus 338 DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l-~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~ 415 (766)
T Consensus 74 -~-~~~~~~~-~~~~~~~~~~~g~~~~~~~~~e~~~~~~~~l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~ 150 (560)
T COG3829 74 -V-KRIVVVG-KTPVDEQGRVVGVLEVFLDISEALELIEENLRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLL 150 (560)
T ss_pred -C-EEEEECC-CCEEECCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECHHHHHHH
T ss_conf -4-0489817-852412774445512545149899999999999999999998625674599869996899847789883
Q ss_pred CCCHHHHCCCCCHHHH
Q ss_conf 9997894289717881
Q gi|254780903|r 416 GLPDHVLVPGNARSII 431 (766)
Q Consensus 416 g~~~~~~~~~~~~~~~ 431 (766)
T Consensus 151 gl~~e~~~gk~~~~v~ 166 (560)
T COG3829 151 GLSPEEVLGKHLLDVV 166 (560)
T ss_pred CCCHHHHCCCCHHHHH
T ss_conf 9998998197189887