                                                                        Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:168 nt.     Distance to run of Ts=0 nt.   Size=32 nt.     Delta G= -8.20 kcal/mol
Antiterminator: Size=40 nt.     Delta G=-10.20 kcal/mol
Anti-antiterminator:   Size=79 nt.     Delta G=-20.30 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

AAGTCAGGTACTTTGGGGAATAGGTCTTTTAGTCTTTCTTCTAAATCTCGGAGGGAGA
GGTTTTCTAAGATCTTAATCAGTAGTGCTGCTACTATGAGGTGATCTTCGTAAACTCT
GGGTCTTCCTCTTTTGTTGTACTGACTTGGTCTAATGGTATTGCATATTTCCCTGCTT
TTGGTTAATATCAGTTTTATCAATTGCTTGTTATTTCTTGTTCTCATTCCCTTCCTTC
TACTTCTTCTCTTCCACTGTGTCAAgattttttaaacgggcttatacccggtagttgaagaagaaggaTTG

    cap Gene: cap     GI: 15606745     BI number: aq_1641     GOG: COG0438     Description: capsular polysaccharide biosynthsis protei AT A  C A  T T  C CG TG TA CG T  G T  G TA CG TA |  G |  G |  T |  T G  T A  T T  C T  T TA         C TA       G  T CG       T  G TA        GC GT        AT GC        TA         A AT        GC       A  A T  T      |  T      T  C A  A      |  A      G  T A  A       AT       C  C G  |       CG       T  T G  |       TA        TG GT       A  G       CG GC       A  G       TG TA       T  T       AT TG       T  |       GC |  T       CG       |  T TA        TA       T  T CG        AT        GC AT        GC        GC TG        AT        AT GC        AT        GC                         TTTTGTTGTACTGACTTGGTCTAATGGTATTGCATATTTCCCTGCTTTTGGTTAATATCAGTTTTATCAATTGCTTGTTATTTCTTGTTCTCATTCCCTTCCTTCTACTTCTTCTCTTCCACTGTGTCAAgattttttaaacgggcttatacccggtagttgaagaagaaggaTTG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [M] COG0438 Glycosyltransferase ... can be seen here     ..................................................................................................................