                                                                        Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:175 nt.     Distance to run of Ts=3 nt.   Size=20 nt.     Delta G= -8.30 kcal/mol
Antiterminator: Size=43 nt.     Delta G= -9.10 kcal/mol
Anti-antiterminator:   Size=13 nt.     Delta G= -5.90 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

CGGTTCTGAGGTCCGTTATGGATTGATTGATAACGGAAATTTCAGCCCTGAGGGCTTC
AATGTTAGCCATGTAACCCCTGAGCTGTCTGTTTAGCTCATCCATTTTTTGCTCAGGA
GTTTTTTGAACTTCCTTCTTCTCTTCTGCCATcttacccacctcctattaaggtttacatataattttattatatt
ccttttaaaaatttttgcaataattcttatcataaaactttataaaattgtattaagactttgtcccatacactattttgctaaagaggctaaattctat
taattgcgATG

    gidA1 --- genX Gene: gidA1     GI: 15606146     BI number: aq_761     GOG: COG0445     Description: glucose inhibited division protein A Gene: genX     GI: 15606147     BI number: aq_763     GOG: COG2269     Description: lysyl-tRNA synthetase (genX) homolo             A           T  G           T  C            GC            TA            AT           A  G           C  T           T  A           T  A           C  C            GC            GC            GC        TG            AT       C  T           G  G      T  T   G       T  A       GT T  A      C  |       TA CG       C  |       CG CG        CG        GC CG        GC        AT GC        AT        GC AT        CG        TA                         TCCATTTTTTGCTCAGGAGTTTTTTGAACTTCCTTCTTCTCTTCTGCCATcttacccacctcctattaaggtttacatataattttattatattccttttaaaaatttttgcaataattcttatcataaaactttataaaattgtattaagactttgtcccatacactattttgctaaagaggctaaattctattaattgcgATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [D] COG0445 NAD/FAD-utilizing enzyme apparently involved in cell division ... can be seen here [J] COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in A_aeolicus                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:190 nt.     Distance to run of Ts=3 nt.   Size=20 nt.     Delta G= -8.30 kcal/mol Antiterminator: Size=43 nt.     Delta G= -9.10 kcal/mol Anti-antiterminator:   Size=13 nt.     Delta G= -5.90 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 CGGTTCTGAGGTCCGTTATGGATTGATTGATAACGGAAATTTCAGCCCTGAGGGCTTC AATGTTAGCCATGTAACCCCTGAGCTGTCTGTTTAGCTCATCCATTTTTTGCTCAGGA GTTTTTTGAACTTCCTTCTTCTCTTCTGCCATcttacccacctcctattaaggtttacatataattttattatatt ccttttaaaaatttttgcaataattcttatcataaaactttataaaattgtattaagactttgtcccatacactattttgctaaagaggctaaattctat taattgcgATG     gidA1 --- genX Gene: gidA1     GI: 15606146     BI number: aq_761     GOG: COG0445     Description: glucose inhibited division protein A Gene: genX     GI: 15606147     BI number: aq_763     GOG: COG2269     Description: lysyl-tRNA synthetase (genX) homolo             G           T  T           A  T            AA            CG            TC           T  C           C  A           G  T           G  G           G  T            AA            GA            TC        TG            CC       C  T           C  C      T  T   G       C  C       GT T  A      G  |       TA CG       A  |       CG CG        CT        GC CG        TG        AT GC        TA        GC AT        TG        TA                         TCCATTTTTTGCTCAGGAGTTTTTTGAACTTCCTTCTTCTCTTCTGCCATcttacccacctcctattaaggtttacatataattttattatattccttttaaaaatttttgcaataattcttatcataaaactttataaaattgtattaagactttgtcccatacactattttgctaaagaggctaaattctattaattgcgATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [D] COG0445 NAD/FAD-utilizing enzyme apparently involved in cell division ... can be seen here [J] COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) ... can be seen here     ..................................................................................................................