                                                                        Gene putatively regulated by attenuation in C_muridarum

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:158 nt.    Distance to gene:51 nt.     Distance to run of Ts=1 nt.   Size=26 nt.     Delta G= -7.10 kcal/mol
Antiterminator:    Distance from promoter:124 nt. Size=47 nt.     Delta G= -8.40 kcal/mol
Anti-antiterminator:    Distance from promoter:119 nt.    Size=27 nt.     Delta G= -6.10 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: TTGAGA-TATAGT. It has a score value of 74.3 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

TTGAGATAGAAAGGTTTTCCCTATAGTGTCGAAAACTACTTTTGTGTAACATGGTCTG
GATTTTAGCCTTAGTAATCTTGTCTTTTGGATATTTCCTCTTTCGAGGGTTATTGTGT
GCTAAGAGCTGGAGCCGAGCCCAAGATCTGCGTACAAGGTTGGATTCTGACAGTACGA
TGATATGTGTATACGCAGGGCCTTTTGGTTTCTCGTAATTGTTTTTGCCTAAGCTTCT
GAGGGTTCTTGTTTTTCTGAATGAAGCCCTCAGAGTAAGATG

    TC0247 Gene: TC0247     GI: 15834867     BI number: TC0247     GOG: COG1055     Description: Na+/H+ antiporter, putativ            AT           G  A           T  T           A  G            GT            CG            AT            TA            GT           A  A           C  C   T       A  G A  T       GC GC        TA        TT GT        CG       T  T TG        TG        CG TA       T  |       CG GC       A  |       GT G  A      G  |       GT A  |      G  |       GT A  |      T  |      A  C CG        TG       C  T AT        GC        GC TA        GC        CG GC        AT        AT CG        AT        TA                         ATTGTTTTTGCCTAAGCTTCTGAGGGTTCTTGTTTTTCTGAATGAAGCCCTCAGAGTAAGATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [P] COG1055 Na+/H+ antiporter NhaD and related arsenite permeases ... can be seen here     ..................................................................................................................