                                                                        Gene putatively regulated by attenuation in A_fulgidus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:202 nt.     Distance to run of Ts=2 nt.   Size=19 nt.     Delta G= -6.30 kcal/mol
Antiterminator: Size=38 nt.     Delta G=-11.20 kcal/mol
Anti-antiterminator:   Size=24 nt.     Delta G= -6.90 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

GCTGCGGTGCTGGAGGCGGGAACATTGTGAGGGACGTGGAATTCAGGCCCTCTCTCAA
GAGAATTGACGAGGCGGGGATTGTTGCTGCCGAATTTTTGGCGGTGGCGTGCCCCTTC
TGCCTGATGATGCTTGAGGATGCTGTGAAGGTTAAGAAGGCTGACGTTAAGGTTCTTG
ACGTGGTGGAGCTGCTTTACGAGTCGGTTTTTGGTGTGGAGGAGTGAtttttggttttgtttgaa
ggtataattttttgatttagcaggtcgaaaaacctattaatttttaaacatacatgcatgcATG

   ف --- vapC Gene: AF1997     GI: 11499579     BI number: AF1997     GOG: COG1753     Description: conserved hypothetical protein Gene: vapC-1     GI: 11499578     BI number: AF1996     GOG: COG1487     Description: virulence associated protein C (vapC-1             G           A  A           G  A            AT            AT            CG            TA           |  C   A        CG A  T       TA G  T       CG GC        TG         T TA       |  C      T  G G  G       CG        AT C  G       CG        GT A  |       CG       G  G GC       |  G       GC GC       G  A       GT GC        GT        CG AT        AT        GC GC        CG        GC                         GAATTTTTGGCGGTGGCGTGCCCCTTCTGCCTGATGATGCTTGAGGATGCTGTGAAGGTTAAGAAGGCTGACGTTAAGGTTCTTGACGTGGTGGAGCTGCTTTACGAGTCGGTTTTTGGTGTGGAGGAGTGAtttttggttttgtttgaaggtataattttttgatttagcaggtcgaaaaacctattaatttttaaacatacatgcatgcATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [S] COG1753 Uncharacterized conserved protein ... can be seen here [R] COG1487 Predicted nucleic acid-binding protein, contains PIN domain ... can be seen here     ..................................................................................................................