                                                                        Gene putatively regulated by attenuation in B_cereus_ATCC_10987

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:115 nt.     Distance to run of Ts=0 nt.   Size=28 nt.     Delta G=-14.00 kcal/mol
Antiterminator: Size=70 nt.     Delta G= -7.10 kcal/mol
Anti-antiterminator:   Size=53 nt.     Delta G= -3.70 kcal/mol

                                                                        Nomenclature/Definitions
Bases shared by the antitermination and termination structures are shown in red
Bases shared by the anti-antitermination and antitermination structures are shown in green
The sequences of the anti-antiterminator, antiterminator and terminator structures are underlined
Coding regions are in CAPS, non-coding regions are in lower case

ATTATGGGATTATCGATGATTTTGGGCGCTTATTTTGGATCGAAATTTGCAGTTCAAA
AAGGTGTTGGATATGTAAGAACTTTATTCTTGTTAGTAACTATTTTATTGATTAGCAA
AAACGTTTTGGAATATACTCATATTTTGTAGagttatacatttgtataactctatttttttattatattttaaaaat
taattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggct
aaaaataATG

    BCE0338 Gene: BCE0338     GI: 42779419     BI number: BCE0338     GOG: COG0506,COG4230     Description: delta-1-pyrroline-5-carboxylate dehydrogenase, putativ            AA           A  A           A  C            CG            GT            AT           T  T           T  |           A  |           G  |           T  |           T  | TG        AT T  T       TG C  T       TG TA        TA TG        TA AT        AT TA        TA TA       C  | T  C      A  | C  T       AT A  A       TA AT        GC GT        AT AT       T  C       tt AT        TA       a  t TA        GT        cg GT        TA        at T  T      |  T       ta A  G      T  T       at T  A      C  T       ta A  |      T  T       ta GT        TG        gc GT        AT        at TA        TA        Gc TG        TG        At GC        Ta        Ta TA        Cg        Gt                         ttttttattatattttaaaaattaattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggctaaaaataATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [E] COG0506 Proline dehydrogenase ... can be seen here [C] COG4230 Delta 1-pyrroline-5-carboxylate dehydrogenase ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in B_cereus_ATCC_10987                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:122 nt.     Distance to run of Ts=0 nt.   Size=28 nt.     Delta G=-14.00 kcal/mol Antiterminator: Size=70 nt.     Delta G= -7.10 kcal/mol                                                                         Nomenclature/Definitions Bases shared by the antitermination and termination structures are shown in red The sequences of the antiterminator and terminator structures are underlined Coding regions are in CAPS, non-coding regions are in lower case ATTATGGGATTATCGATGATTTTGGGCGCTTATTTTGGATCGAAATTTGCAGTTCAAA AAGGTGTTGGATATGTAAGAACTTTATTCTTGTTAGTAACTATTTTATTGATTAGCAA AAACGTTTTGGAATATACTCATATTTTGTAGagttatacatttgtataactctatttttttattatattttaaaaat taattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggct aaaaataATG     BCE0338 Gene: BCE0338     GI: 42779419     BI number: BCE0338     GOG: COG0506,COG4230     Description: delta-1-pyrroline-5-carboxylate dehydrogenase, putativ Ga A  g T  t Gt Ta Tt T  a T  | A  | T  | A  | C  | Tc Ca At Tt At T A A  | G  | G T T T T         tt G       a  t C        cg A        at |         ta A         at A         ta A         ta A        gc C        at G        Gc A        At T        Ta T        Gt             ttttttattatattttaaaaattaattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggctaaaaataATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [E] COG0506 Proline dehydrogenase ... can be seen here [C] COG4230 Delta 1-pyrroline-5-carboxylate dehydrogenase ... can be seen here     ..................................................................................................................