                                                                        Gene putatively regulated by attenuation in B_cereus_ATCC_10987

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:181 nt.     Distance to run of Ts=0 nt.   Size=26 nt.     Delta G=-12.90 kcal/mol
Antiterminator: Size=77 nt.     Delta G= -8.91 kcal/mol
Anti-antiterminator:   Size=18 nt.     Delta G= -4.40 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

GAAATTGCGAAATTAAAAGGAATTTCTTATGAGGAAGTAGCAGAAATGACAACGAAAA
ATGCAAAAGTTTTATTTGGTGTTGAATAAaagagtgggagaacccattcttttttatttttgtgaaaaaatagcaggcg
tgacagagaagataagggcgaatgagtaagtggtacaataaggagagagaacaaagttttggacattctattttttaaaatgtaacaatggggaaaataa
taatggaaaagtcgtcatttttttgttttactaagtagagacgaaacgagtgtggaggcaagcATG

    BCE0038 --- ksgA Gene: BCE0038     GI: 42779119     BI number: BCE0038     GOG: COG1658     Description: primase-related protein Gene: ksgA     GI: 42779120     BI number: BCE0039     GOG: COG0030     Description: dimethyladenosine transferas             T           A  G           A  C           A  A           A  A           A  A           G  A            CG            AT            AT           C  |            AT            GT            TA            AT            AT            AT           |  G           G  G            AT            CG            GT            AT            TG           |  A           |  A           G  T           A  A           A  A       ga           G  a      a  a           G  a       gc           A  g       gc gc       G  a       gc a  A       Tg        ta aT        At        gt cG        Tg        at gT        Tg        gc gT        Cg        at aT        Ta        at gC        Tg        At gT        Ta        At                         ttatttttgtgaaaaaatagcaggcgtgacagagaagataagggcgaatgagtaagtggtacaataaggagagagaacaaagttttggacattctattttttaaaatgtaacaatggggaaaataataatggaaaagtcgtcatttttttgttttactaagtagagacgaaacgagtgtggaggcaagcATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [L] COG1658 Small primase-like proteins (Toprim domain) ... can be seen here [J] COG0030 Dimethyladenosine transferase (rRNA methylation) ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in B_cereus_ATCC_10987                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:188 nt.     Distance to run of Ts=0 nt.   Size=20 nt.     Delta G=-10.20 kcal/mol Antiterminator: Size=77 nt.     Delta G= -8.91 kcal/mol Anti-antiterminator:   Size=33 nt.     Delta G= -3.80 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 GAAATTGCGAAATTAAAAGGAATTTCTTATGAGGAAGTAGCAGAAATGACAACGAAAA ATGCAAAAGTTTTATTTGGTGTTGAATAAaagagtgggagaacccattcttttttatttttgtgaaaaaatagcaggcg tgacagagaagataagggcgaatgagtaagtggtacaataaggagagagaacaaagttttggacattctattttttaaaatgtaacaatggggaaaataa taatggaaaagtcgtcatttttttgttttactaagtagagacgaaacgagtgtggaggcaagcATG     BCE0038 --- ksgA Gene: BCE0038     GI: 42779119     BI number: BCE0038     GOG: COG1658     Description: primase-related protein Gene: ksgA     GI: 42779120     BI number: BCE0039     GOG: COG0030     Description: dimethyladenosine transferas             a           A  a           A  g           T  a           A  g           A  t           G  g            Tg            Tg            Ga           T  |            Gg            Ga            Ta            T            T            A           |           T            T            T            T            G            A   A       | A  G      | A  T      A A  T      A C  T      A GT       C TA       G   AT       T         ga AT       A        a  a AT        A        gc A  G       A        gc A  G       A        gc GT        A        ta CG        G        gt AT        C        at AT        A        gc CG        A        at                         tttttatttttgtgaaaaaatagcaggcgtgacagagaagataagggcgaatgagtaagtggtacaataaggagagagaacaaagttttggacattctattttttaaaatgtaacaatggggaaaataataatggaaaagtcgtcatttttttgttttactaagtagagacgaaacgagtgtggaggcaagcATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [L] COG1658 Small primase-like proteins (Toprim domain) ... can be seen here [J] COG0030 Dimethyladenosine transferase (rRNA methylation) ... can be seen here     ..................................................................................................................