                                                                        Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:176 nt.     Distance to run of Ts=0 nt.   Size=40 nt.     Delta G=-11.80 kcal/mol
Antiterminator: Size=42 nt.     Delta G= -5.70 kcal/mol
Anti-antiterminator:   Size=51 nt.     Delta G=-11.02 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

TCACCCTCTTTAAAAACTCCTTCCTGTCTATTCCCCTTTTCTCTATATATTTAGAAAG
AGGAGATTTTTCGTCGAGGAGCAGGGCTATTAGAAGGTGATCCGTGTCCACCTTAGTG
TCCTTGTTTTCCCTTGCTATTTCTTTCGCCTTTTCCAGATACTCAAGGGATTTGGCGG
AAAACAGGTTTTCGCTTATCATacttttacctcccgtttaattttcctttaataatatttcttgagtataattgtgtcaacctt
ttatacctttcgtgcacactccctccactataattaatttctATG

    aspS --- fumX --- aq_1680 Gene: aspS     GI: 15606775     BI number: aq_1677     GOG: COG0173     Description: aspartyl-tRNA synthetase Gene: fumX     GI: 15606776     BI number: aq_1679     GOG: COG1838     Description: C-terminal fumarate hydratase, class I Gene: aq_1680     GI: 15606777     BI number: aq_1680     GOG: COG3334     Description: putative protei   A G  G G  A AT GT AT AT AT         G GC       A  G        G A  G       CG       C  T T  T       GC       C  G T  C       AT       T  T T  |      G  A      A  C A  |      G  T       GC T  |      A  T       TA A  |      G  A       GC T  |      C  |       GC A  |      T  |       AT T  |      G  |       AT CG        CG       G  A TA        TA       A  G CG        TA       T  T TG        TG       T  | TA        TG       A  | TG       T  T      T  | |  C      A  G       CG TA       G  A       GT CG        AT        GC CG        GC        GC CG        GC        AT                         TGTTTTCCCTTGCTATTTCTTTCGCCTTTTCCAGATACTCAAGGGATTTGGCGGAAAACAGGTTTTCGCTTATCATacttttacctcccgtttaattttcctttaataatatttcttgagtataattgtgtcaaccttttatacctttcgtgcacactccctccactataattaatttctATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [J] COG0173 Aspartyl-tRNA synthetase ... can be seen here [C] COG1838 Tartrate dehydratase beta subunit/Fumarate hydratase class I, C-terminal domain ... can be seen here [S] COG3334 Uncharacterized conserved protein ... can be seen here     ..................................................................................................................