HHsearch alignment for GI: 254780450 and conserved domain: COG3829
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms].
Probab=98.86 E-value=1e-07 Score=72.33 Aligned_cols=228 Identities=13% Similarity=0.136 Sum_probs=142.6
Q ss_pred HHHHHCCCEEEEECCCCCEEEEHHHHHHHCCCCHHHHCCCCCCHHHHCCCHHHHHHHHHHHHHCCCCEEEEEEEEEEEEC
Q ss_conf 99852596199992999689764679864299967804563218880882048999999862002671488899998048
Q gi|254780450|r 164 DYLDHSPVGFMSADHQGKILYINATLAEWIGIDLTTFTSKSISIGDITAGEGLALIQAIRTEPSHQKITTLDLDLRRIDN 243 (803)
Q Consensus 164 ~~le~a~~gi~~~D~~g~i~~~N~~~~~llG~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 243 (803)
T Consensus 5 ~~l~~~~~~~~vi~~~~~~~~~~~~a~~~~~~~~~~~i~~--~~~~i~~~~~~~~v~-------~~~~~~~~~~~~~~-~ 74 (560)
T COG3829 5 GILKSILDGPVVIDKNTGIDVANALALAKRQKNAEAVIGR--PLREILETLGMERVE-------QSRDKELTERLKLK-V 74 (560)
T ss_pred HHHHHCCCCEEEEECCCCEEEECHHHHHHHHCCEEEEECC--CHHHHHCCCCCCEEE-------CCCCCCEEEEEECC-C
T ss_conf 4566504640899717754760337776510544787423--411111125862341-------06765201355406-4
Q ss_pred CEEEEEEEEEEEEECCCCCEEEEEEEEEEHHHHHHHHHH-HHHHHHHHHHHHHCCCCEEEEEEECEEEEEECCCCCCCCC
Q ss_conf 979999995567653888554799999860789999999-9999999999983467509998502069983155444445
Q gi|254780450|r 244 GHGIPVKIVHHILASCDGKPGESRTVVVSRKNCDSGDPS-GTIANMRFNRFFNNIPMAIASIDKKGRILRTNAHFLKLFP 322 (803)
Q Consensus 244 g~~~~v~~~~~~~~~~~G~~~~~~~~~~Dit~~k~~e~~-l~~se~rl~~i~e~~p~~I~~~d~~g~i~~~N~a~~~l~~ 322 (803)
T Consensus 75 ---~~~~~~~~~~~~~~~~~~g~~~~~~~~~e~~~~~~~~l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~- 150 (560)
T COG3829 75 ---KRIVVVGKTPVDEQGRVVGVLEVFLDISEALELIEENLRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLL- 150 (560)
T ss_pred ---EEEEECCCCEEECCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECHHHHHHH-
T ss_conf ---0489817852412774445512545149899999999999999999998625674599869996899847789883-
Q ss_pred CCCHHHHCCCCHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCEEEECCCCEEEEEEEEEEECCCCCCCCEEEEEEEEECC
Q ss_conf 48846617986666101111220246666555411233454048873885068999987304566776138999998502
Q gi|254780450|r 323 NCTEGDGTSNDIFSIVHKNEKRKIIAALYDANDQKSDISPIDSPHPQDENRYFRFYISATLDRSTEAPEEQAILYTVEIT 402 (803)
Q Consensus 323 g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~i~~~~DIT 402 (803)
T Consensus 151 gl~~e~~~gk~~~~v~~~~~~s~~l~vl---~~~kp~~---~~~~~~~~~~-~--i~~~~pv~-~~g~l~G~v~~~~~~~ 220 (560)
T COG3829 151 GLSPEEVLGKHLLDVVSAGEDSTLLEVL---RTGKPIR---DVVQTYNGNK-I--IVNVAPVY-ADGQLIGVVGISKDVS 220 (560)
T ss_pred CCCHHHHCCCCHHHHHHCCCCCEEHHHH---HCCCCCE---EEEEEECCCC-E--EEEECCEE-CCCCEEEEEEEECCHH
T ss_conf 9998998197189887236774101134---1588512---0355304873-4--67644473-1782788997520248
Q ss_pred CCCCCCCCHHHHH
Q ss_conf 3211221012344
Q gi|254780450|r 403 EQKALEARMAQTQ 415 (803)
Q Consensus 403 erk~~E~~L~qa~ 415 (803)
T Consensus 221 ~l~~l~~~~~~~~ 233 (560)
T COG3829 221 ELERLTRELEESE 233 (560)
T ss_pred HHHHHHHHHHHHH
T ss_conf 8899999999875