                                                                        Gene putatively regulated by attenuation in B_anthracis_Ames

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:115 nt.     Distance to run of Ts=0 nt.   Size=26 nt.     Delta G=-12.30 kcal/mol
Antiterminator: Size=70 nt.     Delta G= -6.80 kcal/mol
Anti-antiterminator:   Size=53 nt.     Delta G= -5.70 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

ATTATGGGGTTATCGATGATTTTTGGCGCTTATTTTGGATCGAAGTTTGCAGTTCAAA
AAGGTGTTGGATATGTAAGAGCTTTATTTTTGTTAGTGACTATTTTATTGATTAGCAA
AAACGTTTTGGAATATACTCATATTTTGTAGagttatacatttgtataactctgtttttttattatattttaaaaat
taattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggct
aaaaataATG

    BA0309 Gene: BA0309     GI: 30260481     BI number: BA0309     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 T  T       TG TA        TA TG        TA AT        AT TG        TA TA       C  | T  C      A  | C  T       GT G  A       TA AT        GC GT        AT AT       T  C AT        TA        tt TA        GT       a  t GT        TA        cg T  T      |  T       at A  G      T  T       ta T  A      T  T       at A  |      T  T       ta GT        TG        ta GT        AT        gc TA        TA        at TG        TG        Gc GC        Ta        At TA        Cg        Tg                         tttttttattatattttaaaaattaattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggctaaaaataATG                                                                         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_anthracis_Ames                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:122 nt.     Distance to run of Ts=0 nt.   Size=26 nt.     Delta G=-12.30 kcal/mol Antiterminator: Size=70 nt.     Delta G= -6.80 kcal/mol Anti-antiterminator:   Size=64 nt.     Delta G= -8.82 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 ATTATGGGGTTATCGATGATTTTTGGCGCTTATTTTGGATCGAAGTTTGCAGTTCAAA AAGGTGTTGGATATGTAAGAGCTTTATTTTTGTTAGTGACTATTTTATTGATTAGCAA AAACGTTTTGGAATATACTCATATTTTGTAGagttatacatttgtataactctgtttttttattatattttaaaaat taattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggct aaaaataATG     BA0309 Gene: BA0309     GI: 30260481     BI number: BA0309     GOG: COG0506,COG4230     Description: delta-1-pyrroline-5-carboxylate dehydrogenase, putativ            Ga           A  g           T  t            Gt            Ta   T        Tt T  T      T  a A  T      T  | T  A      A  | C  T      T  | A  T      A  | G  G      C  | TA        Tc GT        Ca AT        At TA        Tt TG        At GC        T TA        A TA       A  | TA       G  | TA        G TA        T A  C       T T  |       T T  |      T T  |       G        tt CG        C       a  t GT        A        cg AT       |         at GT       A         ta AT       A         at A  G      A         ta T  G       A        ta G  A       C        gc TA        G        at AT        A        Gc TA        T        At AT        T        Tg                         tttttttattatattttaaaaattaattaatttttaaaatataagtctaggaatatttgaataaatctaaattatcgtgtagaataatgttgtaaaatgtaaacgtttttctaaggggaggctaaaaataATG                                                                         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     ..................................................................................................................