                                                                        Gene putatively regulated by attenuation in B_cereus_ATCC_10987

This operon is putativelly rgulated by Methionine_S-box

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:180 nt.    Distance to gene:44 nt.     Distance to run of Ts=0 nt.   Size=24 nt.     Delta G=-13.10 kcal/mol
Antiterminator:    Distance from promoter:152 nt. Size=38 nt.     Delta G=-11.90 kcal/mol
Anti-antiterminator:    Distance from promoter:121 nt.    Size=48 nt.     Delta G= -8.82 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: ttggta-taaaaa. 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

ttggtatagtcttcaacataaagttaaaaattctaaaaaattatacaactcttatcaagagcaggtggagggatttggcccgatgaagcccagcaaccga
ccgtaataccattgtgaaATGGGGCGTTTATTTACGCCAAAAGGCACGGTGCTAATTCCAGCAGA
AAGTAAAACTTTCTGGCAGATAAGAGGGGAGAAGATAAACTTCAAACCTCTTTCTTAG
tggaaagaggtttttctacgtcagaaaaacctctgaatataaaaaagggggagaagacgATG

    BCE4099 --- BCE4098 Gene: BCE4099     GI: 42783146     BI number: BCE4099     GOG: COG4857     Description: 5-methylthioribose kinase, putative Gene: BCE4098     GI: 42783145     BI number: BCE4098     GOG: COG0182     Description: translation initiation factor, putative, aIF-2BI famil   A A  A T  A GC AT AT AT GC AT CG         A |  G      T  A |  C      A  A |  A       GC |  G       AT |  A       AT |  T       GC |  A      A  A |  A      G  A       AG |  G      G  A      T  t G  A       GC        Tg A  G       GC        Cg CG        AT        Ta CG        GC        Ta TG        AT        Ta TA        AT        Cg A  G      T  |       Ta A  A       AT        Cg TA        GC        Cg CG        AT        At                         ttttctacgtcagaaaaacctctgaatataaaaaagggggagaagacgATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG4857 Predicted kinase ... can be seen here [J] COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family ... can be seen here                                                                         Genes that have a predicted attenuator with a riboswitch: Methionine_S-box sequence ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in B_cereus_ATCC_10987 This operon is putativelly rgulated by Methionine_S-box                                                                         Characteristics of the secondary structures Terminator:    Distance from promoter:158 nt.    Distance to gene:63 nt.     Distance to run of Ts=0 nt.   Size=27 nt.     Delta G= -7.80 kcal/mol Antiterminator:    Distance from promoter:125 nt. Size=41 nt.     Delta G= -7.84 kcal/mol                                                                         Nomenclature/Definitions The most likely promoter is: ttggta-taaaaa. 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 The sequences of the antiterminator and terminator structures are underlined Coding regions are in CAPS, non-coding regions are in lower case ttggtatagtcttcaacataaagttaaaaattctaaaaaattatacaactcttatcaagagcaggtggagggatttggcccgatgaagcccagcaaccga ccgtaataccattgtgaaATGGGGCGTTTATTTACGCCAAAAGGCACGGTGCTAATTCCAGCAGA AAGTAAAACTTTCTGGCAGATAAGAGGGGAGAAGATAAACTTCAAACCTCTTTCTTAG tggaaagaggtttttctacgtcagaaaaacctctgaatataaaaaagggggagaagacgATG     BCE4099 --- BCE4098 Gene: BCE4099     GI: 42783146     BI number: BCE4099     GOG: COG4857     Description: 5-methylthioribose kinase, putative Gene: BCE4098     GI: 42783145     BI number: BCE4098     GOG: COG0182     Description: translation initiation factor, putative, aIF-2BI famil   A A  A T  A GC AT AT AT GC AT CG |  G |  C |  A        A |  G      T  A |  A      A  A |  T       GC |  A       AT |  A       AT |  G       GC |  A      A  A G  G      G  A A  G      G  A CG        GC CG        GC TA        AT TG        GC             TTTCTTAGtggaaagaggtttttctacgtcagaaaaacctctgaatataaaaaagggggagaagacgATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG4857 Predicted kinase ... can be seen here [J] COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family ... can be seen here                                                                         Genes that have a predicted attenuator with a riboswitch: Methionine_S-box sequence ... can be seen here     ..................................................................................................................