                                                                        Gene putatively regulated by attenuation in A_fulgidus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:166 nt.     Distance to run of Ts=3 nt.   Size=28 nt.     Delta G= -7.80 kcal/mol
Antiterminator: Size=45 nt.     Delta G= -9.90 kcal/mol
Anti-antiterminator:   Size=48 nt.     Delta G=-10.40 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

TTCATACTCCGCCACGCCGTAAAGGAGCATCGCAGGAGGGCACCCAAAGTCCTCAGCC
TCAAGCACAACCGTTCTGCCGATGTAGCGGGCAAAGGCAATGGCCTGACAGACTGCCA
TCTTTATTCCGTATTTTGACGGCCTAAAGGCCCTTTCAGGCTCGTACTTCTCCTGGAA
GAATTTTACACCAACTGGTGGTGTGCGGAGTTTCAGCATCTCAACAATTCTCTTTCCC
TCATCGTTCCACTTCATGTTTCGCCTTAGTTTCATgatttaatatgtttttcagtcatttgactgcaaGTG

    AF1312 Gene: AF1312     GI: 11498910     BI number: AF1312     GOG: COG2834     Description: conserved hypothetical protei   C C  A C  A       CT A  A      T  G CG       T  C GT        GC GC        CG GC       C  A AT       A  | GC        AT G  A       CG        AT A  |       AT       A  G CG       |  A       CG GC        CG        GC C  |       GC        GC T  |      A  |       AT A  |      A  |      |  G C  |      C  |      |  A GC        TG       |  C AT        CG       |  A GC        CG       |  G G  A       GC       |  A A  A      A  A      A  C A  G      C  A       AT A  C       TA        CG TA        CG        GC GC        CG        GC                         ATCTTTATTCCGTATTTTGACGGCCTAAAGGCCCTTTCAGGCTCGTACTTCTCCTGGAAGAATTTTACACCAACTGGTGGTGTGCGGAGTTTCAGCATCTCAACAATTCTCTTTCCCTCATCGTTCCACTTCATGTTTCGCCTTAGTTTCATgatttaatatgtttttcagtcatttgactgcaaGTG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [M] COG2834 Outer membrane lipoprotein-sorting protein ... can be seen here     ..................................................................................................................