                                                                        Gene putatively regulated by attenuation in C_perfringens

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:195 nt.     Distance to run of Ts=0 nt.   Size=36 nt.     Delta G=-10.90 kcal/mol
Antiterminator: Size=46 nt.     Delta G= -3.40 kcal/mol
Anti-antiterminator:   Size=42 nt.     Delta G= -3.00 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

tgcaataaactttcaaattaatttttataaaataagttttatatgaattagataattaaaatctataaatgttatttgtttttctaacatttatagattt
ttttattgtgtttttaataaaggaatttatgaaatatttattggaaatacttttggttgtagaaaaaatataaaatttagtataataaaattattaattt
gttgtgaataaaaattaaagaataaatgaaggttttaattcatgtaatttttataggtacgattagttaaaatattttagtgatttagtaggtgattaag
ATG

    CPE0539 --- CPE0540 --- CPE0541 Gene: CPE0539     GI: 18309521     BI number: CPE0539     GOG: COG1454     Description: NAD-dependent 4-hydroxybutyrate dehydrogenase Gene: CPE0540     GI: 18309522     BI number: CPE0540     GOG: -------     Description: hypothetical protein Gene: CPE0541     GI: 18309523     BI number: CPE0541     GOG: NOG04970     Description: conserved hypothetical protei             t           t  a           a  a ta       a  a G  a       ta Tg        at At        gc gt        at        tt at        ta       g  t at       t  t      t  t ta       a  a      t  t t  |      a  a      t  c a  |      g  |       at gt        ta        ta ta        at        ta gt        tg        gc g  g       at        ta a  a      t  t       at ta       t  |       at gt       t  |       at at        ta        ta ta        gt        at tg        at        ta ta        at        cg at        tg        ta                         tttttttattgtgtttttaataaaggaatttatgaaatatttattggaaatacttttggttgtagaaaaaatataaaatttagtataataaaattattaatttgttgtgaataaaaattaaagaataaatgaaggttttaattcatgtaatttttataggtacgattagttaaaatattttagtgatttagtaggtgattaagATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [C] COG1454 Alcohol dehydrogenase, class IV ... can be seen here     ..................................................................................................................