HHsearch alignment for GI: 254780413 and conserved domain: COG3829
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=97.09 E-value=0.011 Score=37.71 Aligned_cols=145 Identities=10% Similarity=0.036 Sum_probs=87.5
Q ss_pred EEECCCCCEEEECHHHHHHHCCCHHHHCCCCHHHHHCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEEEEE
Q ss_conf 99979990999667899662899789749968882040168823899999863796167168861479883799998630
Q gi|254780413|r 87 WNIDAHGYLKEISEELPKTIGNYAFKMIGMRLCDVSDILHIDPNNHIGDLLKRQNTWYGKTTLWPIEGTNLYVPIDLAAL 166 (820)
Q Consensus 87 w~~D~eGr~~~vn~~~~~~~G~~~~e~iGr~~~e~~~~~~~~p~~~i~~~l~~~~~~~~~~~~~~~~g~~~~~~v~ls~~ 166 (820)
T Consensus 15 ~vi~~~~~~~~~~~~a~~~~~~~~~~~i~~~~~~i~~~~~~~~------v~~~~~~~~~~~~~~~--~----~~~~~~~~ 82 (560)
T COG3829 15 VVIDKNTGIDVANALALAKRQKNAEAVIGRPLREILETLGMER------VEQSRDKELTERLKLK--V----KRIVVVGK 82 (560)
T ss_pred EEEECCCCEEEECHHHHHHHHCCEEEEECCCHHHHHCCCCCCE------EECCCCCCEEEEEECC--C----EEEEECCC
T ss_conf 8997177547603377765105447874234111111258623------4106765201355406--4----04898178
Q ss_pred EEECCCCCEEEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCC
Q ss_conf 01568873630556689852210377999998632433445430143200233442101444553100110001334410
Q gi|254780413|r 167 PIYSRNREFSGFRGFGIVHVNRVDNDPRALGKRLDKKFSHLHEIKKGHSSVEKEKYDIFSQQSPPPHLRMKNKVSSLTEY 246 (820)
Q Consensus 167 Pv~d~~g~~~G~rG~gv~r~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 246 (820)
T Consensus 83 ~~~~~~~~~~g~~--~~~~~~~e--------------------------------------------------------- 103 (560)
T COG3829 83 TPVDEQGRVVGVL--EVFLDISE--------------------------------------------------------- 103 (560)
T ss_pred CEEECCCCEEEEE--HHHHHHHH---------------------------------------------------------
T ss_conf 5241277444551--25451498---------------------------------------------------------
Q ss_pred CCCCHHHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 13610122220002101520111000000024402333555421011012223321000110134565455565789999
Q gi|254780413|r 247 YAHKDDVLKTEKYPLLTSEESSLPEQEDFHTINLNQYTKKQYFGTLQNNSKESFEYLSHRNHPSLSAYFDEGENLTPETV 326 (820)
Q Consensus 247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il 326 (820)
T Consensus 104 --------------------------------------~~~~~---------------------~~-~l~~~~~~l~~il 123 (560)
T COG3829 104 --------------------------------------ALELI---------------------EE-NLRQLRQRLEAIL 123 (560)
T ss_pred --------------------------------------HHHHH---------------------HH-HHHHHHHHHHHHH
T ss_conf --------------------------------------99999---------------------99-9999999999998
Q ss_pred HHCCCCEEEEE-CCEEEEECHHHHHHHCCCCHHHHCC
Q ss_conf 63499789970-9958872068898837984477224
Q gi|254780413|r 327 DKCPIPFFVYS-HGNLFYANPSFLLLTKYKSVDDIEI 362 (820)
Q Consensus 327 d~lp~gv~i~~-~gri~~~N~a~~~l~G~~~~e~l~~ 362 (820)
T Consensus 124 ~~~~~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk 160 (560)
T COG3829 124 DSIDDGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGK 160 (560)
T ss_pred HHCCCCEEEECCCCCEEEECHHHHHHHCCCHHHHCCC
T ss_conf 6256745998699968998477898839998998197