                                                                        Gene putatively regulated by attenuation in A_fulgidus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:92 nt.     Distance to run of Ts=0 nt.   Size=29 nt.     Delta G=-13.20 kcal/mol
Antiterminator: Size=49 nt.     Delta G=-10.39 kcal/mol
Anti-antiterminator:   Size=47 nt.     Delta G= -9.60 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

AGACTTTTTCGGCACGAAAAACCTCGGTGTGAACTACGGCCTTGTCTTTACGTCCTAC
GGAGTCGGAGGGCTGGTTGGACCAATAATGGCTGGTTACGTCTTTGACGTTACGGGAA
GCTACGAAATTGCCTTTCTCGTTGCAGGAGTGTTAGCTTTAATTGCAGCCTTTATGAG
CTTCCTCCTCAGGAGGAAGTGAattttatttttttaaacaaaagtggtgggtaatagcacatattctcaagagagacttaaaaa
caaagcgaaaaattaaaacatcagtgattaatttattttaatATG

    oxlT Gene: AF0368     GI: 11497980     BI number: AF0368     GOG: COG5559     Description: conserved hypothetical protei   A        AG G  A      C  C C  A      G  C A  T      T  T T  T      T  T CG       A  T GC       A  A |  C      T  T |  T       TG AT        TA AT        CG GC        GC         C GT        AT       T  A GC       T  T       CG CG       T  C       CG AT       G  |       TA T  T      T  |       CG TG        GC        CG GC        AT        TA C  A       GC        TA A  |       GC        CG G  |       AT        GT TG       C  |      A  G TG        GC       G  A TA        TA        Ta CG        TG        At                         tttatttttttaaacaaaagtggtgggtaatagcacatattctcaagagagacttaaaaacaaagcgaaaaattaaaacatcagtgattaatttattttaatATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [S] COG5559 Uncharacterized conserved small protein ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in A_fulgidus                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:96 nt.     Distance to run of Ts=3 nt.   Size=21 nt.     Delta G=-12.80 kcal/mol Antiterminator: Size=49 nt.     Delta G=-10.39 kcal/mol Anti-antiterminator:   Size=47 nt.     Delta G= -9.60 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 AGACTTTTTCGGCACGAAAAACCTCGGTGTGAACTACGGCCTTGTCTTTACGTCCTAC GGAGTCGGAGGGCTGGTTGGACCAATAATGGCTGGTTACGTCTTTGACGTTACGGGAA GCTACGAAATTGCCTTTCTCGTTGCAGGAGTGTTAGCTTTAATTGCAGCCTTTATGAG CTTCCTCCTCAGGAGGAAGTGAattttatttttttaaacaaaagtggtgggtaatagcacatattctcaagagagacttaaaaa caaagcgaaaaattaaaacatcagtgattaatttattttaatATG     oxlT Gene: AF0368     GI: 11497980     BI number: AF0368     GOG: COG5559     Description: conserved hypothetical protei   A        CA G  A      G  G C  A      T  C A  T      T  C T  T      A  T CG       A  T GC       T  T |  C      T  A |  T       TT AT        CG AT        GA GC        AG GT        TC GC       T  T CG       G  T AT       T  |        C T  T      G  |      T  A TG        AC        CG GC        GC        CG C  A       GT        TA A  |       AC        CG G  |       CC        CG TG       G  |       TA TG        TT        TA TA        TC        CG CG        GA        GT                         GAattttatttttttaaacaaaagtggtgggtaatagcacatattctcaagagagacttaaaaacaaagcgaaaaattaaaacatcagtgattaatttattttaatATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [S] COG5559 Uncharacterized conserved small protein ... can be seen here     ..................................................................................................................