                                                                        Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:137 nt.     Distance to run of Ts=2 nt.   Size=32 nt.     Delta G=-11.70 kcal/mol
Antiterminator: Size=31 nt.     Delta G= -7.20 kcal/mol
Anti-antiterminator:   Size=48 nt.     Delta G=-20.50 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

CTTACGAGAACTATGGAGTGTTCCTGAAGGTTGTGACCTTCACCGGGGATGTAGGCAG
TGACTTCAATACCGTTGGAGAGCCTGACTCTTGCGACTTTTCTGAGGGCAGAGTTTGG
CTTTTTTGGAGTGACTGTGTAGACTCTCACGCACACTCCTCTCTTTTGAGGGCAGCCT
TGAAGTGCCGGAGCTTTAGACTTTTTCTTCCTCTTTTCCCTTCCGTACTTAACTAACT
GGTTGAACGTCGGCATtcgcttcctccttcggtaagtaaaattataaggttaaaataaaaactctaaaATG

    purL --- lsp Gene: purL     GI: 15606878     BI number: aq_1836     GOG: COG0046     Description: phosphoribosylformylglycinamidine synthase II Gene: lsp     GI: 15606879     BI number: aq_1837     GOG: COG0597     Description: lipoprotein signal peptidas TC T  T TG TA CG A  G G  | CG GC         T        CT T  |      T  T      A  C TA       T  G      G  T CG        TG       A  C TA        TA        TA CG        CG        GC AT        GT        TG GT       G  |       GC T  T      T  |       TA CG        TG       C  | CG        TA       A  | GC        GC        GC AT        AT        TA GT       G  G       GC AT        AT        AT GT        CG        GC GT        GT        GC                         TCTCTTTTGAGGGCAGCCTTGAAGTGCCGGAGCTTTAGACTTTTTCTTCCTCTTTTCCCTTCCGTACTTAACTAACTGGTTGAACGTCGGCATtcgcttcctccttcggtaagtaaaattataaggttaaaataaaaactctaaaATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [F] COG0046 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain ... can be seen here [MU] COG0597 Lipoprotein signal peptidase ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in A_aeolicus                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:201 nt.     Distance to run of Ts=0 nt.   Size=24 nt.     Delta G= -6.00 kcal/mol Antiterminator: Size=41 nt.     Delta G= -9.60 kcal/mol                                                                         Nomenclature/Definitions Bases shared by the antitermination and termination structures are shown in red The sequences of the antiterminator and terminator structures are underlined Coding regions are in CAPS, non-coding regions are in lower case CTTACGAGAACTATGGAGTGTTCCTGAAGGTTGTGACCTTCACCGGGGATGTAGGCAG TGACTTCAATACCGTTGGAGAGCCTGACTCTTGCGACTTTTCTGAGGGCAGAGTTTGG CTTTTTTGGAGTGACTGTGTAGACTCTCACGCACACTCCTCTCTTTTGAGGGCAGCCT TGAAGTGCCGGAGCTTTAGACTTTTTCTTCCTCTTTTCCCTTCCGTACTTAACTAACT GGTTGAACGTCGGCATtcgcttcctccttcggtaagtaaaattataaggttaaaataaaaactctaaaATG     purL --- lsp Gene: purL     GI: 15606878     BI number: aq_1836     GOG: COG0046     Description: phosphoribosylformylglycinamidine synthase II Gene: lsp     GI: 15606879     BI number: aq_1837     GOG: COG0597     Description: lipoprotein signal peptidas   G A  T C  G G  A GC AT T  T GC TA         T A  A      C  G G  T      C  A G  A       GC GC        AT GC        GC CG        AT C  T       GT AT       |  G CG        GC TG        TG TA        TA CG        GC             TTTTCTGAGGGCAGAGTTTGGCTTTTTTGGAGTGACTGTGTAGACTCTCACGCACACTCCTCTCTTTTGAGGGCAGCCTTGAAGTGCCGGAGCTTTAGACTTTTTCTTCCTCTTTTCCCTTCCGTACTTAACTAACTGGTTGAACGTCGGCATtcgcttcctccttcggtaagtaaaattataaggttaaaataaaaactctaaaATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [F] COG0046 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain ... can be seen here [MU] COG0597 Lipoprotein signal peptidase ... can be seen here     ..................................................................................................................