                                                                        Gene putatively regulated by attenuation in B_cereus_ATCC14579

This operon is putativelly rgulated by Methionine_S-box

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:131 nt.    Distance to gene:83 nt.     Distance to run of Ts=0 nt.   Size=31 nt.     Delta G=-19.10 kcal/mol
Antiterminator:    Distance from promoter:103 nt. Size=45 nt.     Delta G= -9.30 kcal/mol
Anti-antiterminator:    Distance from promoter:67 nt.    Size=54 nt.     Delta G=-10.20 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: tcgaaa-taatat. It has a score value of 60.24 and is shown in blue
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

tcgaaatatacaatttgaaccaaataataatatagcaatttacttatccagagaggtagagggactggccctatgacacctcagcagcgggttctgtaat
aggaacaccgtgctaattccagcaagcaagtcttgaaagataagtgatgggcctttgtttattaagccttgatcttattttttaagatcaaggctttttg
tattctaaaaagagaaaagggagtaatggaaaaagtacgtttataaaactaagtaaatatatgtgtttagggggttattaggGTG

    BC0207 --- BC0208 --- BC0209 --- BC0210 Gene: BC0207     GI: 30018444     BI number: BC0207     GOG: COG0601     Description: Oligopeptide transport system permease protein oppB Gene: BC0208     GI: 30018445     BI number: BC0208     GOG: COG1173     Description: Oligopeptide transport system permease protein oppC Gene: BC0209     GI: 30018446     BI number: BC0209     GOG: COG0444     Description: Oligopeptide transport ATP-binding protein oppD Gene: BC0210     GI: 30018447     BI number: BC0210     GOG: COG4608     Description: Oligopeptide transport ATP-binding protein opp   a a  g c  t gc at at cg g  a       tt a  a      t  a c  a      g  t cg       t  t ta        ta t  t       ta a  a      c  | a  |       cg         t ta        gc       t  t cg        gc       t  t gt        gt        at |  g      t  t       ta ta       a  g       ta gt       g  a       cg cg       t  t       ta cg        gc        at a  g       at        gc c  |       at        ta a  |       ta        ta a  |       at        cg gc        gt        cg gc        at        gc at        at        at                         ttttgtattctaaaaagagaaaagggagtaatggaaaaagtacgtttataaaactaagtaaatatatgtgtttagggggttattaggGTG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [EP] COG0601 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components ... can be seen here [EP] COG1173 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components ... can be seen here [EP] COG0444 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component ... can be seen here [E] COG4608 ABC-type oligopeptide transport system, ATPase component ... can be seen here                                                                         Genes that have a predicted attenuator with a riboswitch: Methionine_S-box sequence ... can be seen here     ..................................................................................................................