                                                                        Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:130 nt.     Distance to run of Ts=0 nt.   Size=35 nt.     Delta G=-12.50 kcal/mol
Antiterminator: Size=33 nt.     Delta G=-12.30 kcal/mol
Anti-antiterminator:   Size=20 nt.     Delta G= -7.10 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

TTATTTTGGCCACATCACCGCTTACGCTTAGAACTTCTATCTCTTCTAAACTTGTCAA
GGAAACGGAGTACTCAATACCTCCATGCTTTACTTTAAGGTAGGACAGTCCTTCGCAG
AGAGGGCTTTTGAGCTCGTGCTTTTTCCCGGCCCTGTCGAGTACGAGTATTTTTATGT
TCTTTACCTCCGGTGGGGCACCTGCGGGTTCCGCCATAGCGAAGATGAACAAGGGTAT
GAAAAGCATCGAGATTATTTTTCTCATaagaaattattgtatacacgggtagtataaaatccataaaaATG

    rep Gene: rep     GI: 15606167     BI number: aq_793     GOG: COG0210     Description: ATP-dependent DNA helicase RE                       C                     C  T                      CG            CG        GT           T  T       GC            CG        CG            GC       C  |            AT       C  |            GT       T  |           |  T      T  |           |  T      T  | CA       |  T      T  | G  G      T  C       TA C  A      T  C       CG TG       T  C       GT TA        TG        TA CG        CG        GC CG        GC        CG TG        GC        TA GC        GC        CG AT        AT        GT                         ATTTTTATGTTCTTTACCTCCGGTGGGGCACCTGCGGGTTCCGCCATAGCGAAGATGAACAAGGGTATGAAAAGCATCGAGATTATTTTTCTCATaagaaattattgtatacacgggtagtataaaatccataaaaATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [L] COG0210 Superfamily I DNA and RNA helicases ... can be seen here     ..................................................................................................................