                                                                        Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:182 nt.     Distance to run of Ts=1 nt.   Size=33 nt.     Delta G=-13.30 kcal/mol
Antiterminator: Size=43 nt.     Delta G=-14.00 kcal/mol
Anti-antiterminator:   Size=37 nt.     Delta G= -8.11 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

TTCGGAGTAGTCAAAATCGGGAACTCTGTAGAGGTCTATATGTATCAGTTTTCCCTTA
TCCGTTTCGTACTCGTTGACGAGTGTAAAGGTGGGACTCCTTACTGCACTCGGGTTTT
TTACCTTCAAAGCCTTTGCCAGAGCTTTTACAAAAGTAGTCTTTCCCGCTCCCAAAGT
TCCCCTGAGACATATTACCTCGCTTCCCTTTAAAAGCTGTGCGATCTCTTCTGCAAGT
TTGTATGTATCCTCTTCACTTTCAAGGATTACTTCTTTCAAGAGCTCCATttgttaatatttt
tccttATG

    trm1 Gene: trm1     GI: 15606194     BI number: aq_841     GOG: COG1867     Description: N2,N2-dimethylguanosine tRNA methyltransferas            TG           T  A GG        GC A  T       CG GC        TA AT        CG TA        AT        CT |  T       TG       A  C |  A      G  T       GC |  T      C  A       GT |  G       TA        GT |  T       TA        TA |  A      T  |       GC |  T      G  |       GT GC        CG       A  | TA        CG       A  | CG       T  T      A  | T  T      A  |       TG C  T      T  |       GC AT       T  |       TA AT        CG        GC GC        CG        AT GC        CG        GC GC        TA        CG                         GGTTTTTTACCTTCAAAGCCTTTGCCAGAGCTTTTACAAAAGTAGTCTTTCCCGCTCCCAAAGTTCCCCTGAGACATATTACCTCGCTTCCCTTTAAAAGCTGTGCGATCTCTTCTGCAAGTTTGTATGTATCCTCTTCACTTTCAAGGATTACTTCTTTCAAGAGCTCCATttgttaatatttttccttATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [J] COG1867 N2,N2-dimethylguanosine tRNA methyltransferase ... can be seen here     ..................................................................................................................