                                                                        Gene putatively regulated by attenuation in C_perfringens

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:135 nt.     Distance to run of Ts=0 nt.   Size=35 nt.     Delta G=-15.70 kcal/mol
Antiterminator: Size=69 nt.     Delta G= -4.39 kcal/mol
Anti-antiterminator:   Size=45 nt.     Delta G= -4.36 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

AGTTTATGGAGGAGAAACAAAAGAAGTTTTAACTCCTAAAAATATAAAAGATGTTTTT
GGTGTTGAATGTGAAATAGGAGAAAATTCAAAAGGACATATAACAATAAACTTTTTAT
TTTAGataatgactctgttttaagattataacttaaggcagagtttttattatataaacatggaattatttaaagttagtgttgattttagttagat
ataaatatttataaaaggtttgaaaatcaaaataaaataatataaaattacaatatgaaaataagttttttataaggagtattttatATG

    CPE1214 --- CPE1213 Gene: CPE1214     GI: 18310196     BI number: CPE1214     GOG: COG0824     Description: conserved hypothetical protein Gene: CPE1213     GI: 18310195     BI number: CPE1213     GOG: COG0824     Description: hypothetical protei            AA           T  C           A  A           T  A           A  T           C  A           A  A           G  A            GC            AT            AT            AT            AT           C  T   A       T  | T  G       TA A  G       AT A  A       AT A  G       AT G  A       AT T  A      |  A G  A      |  G        a TA       |  a      t  t AT       |  t      t  a AT       |  a      a  a GC       |  a       gc TA       |  t       at TA       |  g       at G  |      G  a       ta T  |      A  c       ta G  |       Gt        tg G  |       Gc        tg TA        At        gc TA        Tg        ta TG        At        cg TG        At        ta TA        At        cg GC        Gt        at TA        Ta        gt                         tttattatataaacatggaattatttaaagttagtgttgattttagttagatataaatatttataaaaggtttgaaaatcaaaataaaataatataaaattacaatatgaaaataagttttttataaggagtattttatATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG0824 Predicted thioesterase ... can be seen here [R] COG0824 Predicted thioesterase ... can be seen here     ..................................................................................................................