                                                                        Gene putatively regulated by attenuation in C_perfringens

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:206 nt.     Distance to run of Ts=0 nt.   Size=24 nt.     Delta G=-13.00 kcal/mol
Antiterminator: Size=61 nt.     Delta G= -8.00 kcal/mol
Anti-antiterminator:   Size=17 nt.     Delta G= -4.20 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

AGTTAAAGAAAATTTTGATGTTGAACTTCATACTGAAGTTAGAATAATTGGTAGAGAT
TAGtaagaaggagtatgcatgtgcatactctttttttagccgtatcataatataaaaattctttacttagaaaatataaaaatatataaaattagagg
tttataaaataagtaataattgacttattttatgttataatctatttaagaaattagtttgtttgctttaattactaagtgattaaagcatttcttatgt
tttgaagttattaaacagattatagatttataggagatgataatATG

    CPE0354 --- CPE0355 --- CPE0356 Gene: CPE0354     GI: 18309336     BI number: CPE0354     GOG: COG1660     Description: conserved hypothetical protein Gene: CPE0355     GI: 18309337     BI number: CPE0355     GOG: COG0391     Description: conserved hypothetical protein Gene: CPE0356     GI: 18309338     BI number: CPE0356     GOG: COG1481     Description: conserved hypothetical protei             A           A  T           T  T           A  G           A  G           G  T           A  A           T  G           T  A           G  G           A  A            AT            GT            TA            CG            At            Ta           A  a            Cg            Ta            Ta        tg            Cg       a  t           |  g       cg   A       |  a       gc T  C      A  g       ta A  T      A  t       at CG       G  a       ta TA       T  t       gc TA        Tg        at CG        Gc        gc AT        Ta        gt AT        At        at                         tttttagccgtatcataatataaaaattctttacttagaaaatataaaaatatataaaattagaggtttataaaataagtaataattgacttattttatgttataatctatttaagaaattagtttgtttgctttaattactaagtgattaaagcatttcttatgttttgaagttattaaacagattatagatttataggagatgataatATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG1660 Predicted P-loop-containing kinase ... can be seen here [S] COG0391 Uncharacterized conserved protein ... can be seen here [S] COG1481 Uncharacterized protein conserved in bacteria ... can be seen here     ..................................................................................................................