                                                                        Gene putatively regulated by attenuation in C_muridarum

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:116 nt.     Distance to run of Ts=0 nt.   Size=29 nt.     Delta G= -7.60 kcal/mol
Antiterminator: Size=47 nt.     Delta G=-11.81 kcal/mol
Anti-antiterminator:   Size=15 nt.     Delta G= -5.40 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

AGTGAAAGACTTATTACGGGAAGGGGAGGGAAATTTTCGAGCTATTGTCACAGGATCT
GAAACAAGAAAAGAACTAAAGCGCATAGTGGATCCTTATTTCCCAGATTTACTCGTTT
TAGCTCATAGCGAGCTTCCTGAAGAGATGCCTATAACCTTGCTAGGAGCTGTTTCTGA
TGAGGTTTTATTATCTTAAaaaggttgtttgttgggagttatttgttacttgtgaaaatgtagacattgtttaaaatttttatttg
atttaatcttatttttttagtctgtgaaagaattatttttGTG

    TC0331 Gene: TC0331     GI: 15834951     BI number: TC0331     GOG: COG1191     Description: RNA polymerase sigma factor, sigma-70 famil            CT           C  G            TA            TA            CG           |  A           |  G           |  A           |  T           |  G           |  C           |  C           |  T           |  A           |  T           |  A        T           |  A      C  G           |  C       GT            GC        AT            AT        GT            GT        GC            CG        AT   A        GC        TG T  G       AT       C  A A  C       TA       G  T CG       A  G       TG TA        CG        TA CG        TA        CG GC        CG        CG AT        GC        AT                         TTTATTATCTTAAaaaggttgtttgttgggagttatttgttacttgtgaaaatgtagacattgtttaaaatttttatttgatttaatcttatttttttagtctgtgaaagaattatttttGTG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit ... can be seen here     ..................................................................................................................