Gene putatively regulated by attenuation in A_aeolicus

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:57 nt.     Distance to run of Ts=0 nt.   Size=38 nt.     Delta G=-12.50 kcal/mol
Antiterminator: Size=34 nt.     Delta G= -6.80 kcal/mol
Anti-antiterminator:   Size=71 nt.     Delta G= -8.52 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

CCGCCTCATCTCCCATTCTCTCAAGGTCGGAAACTATCTTGTATATCCCCATTATCAT
CCTGAGGTCTCCGGCTTCGGGCTGGTACAGGGCTATCATCCTTATACACCTTCTCTCT
ATGTCAACCTCAAGGAGGTCTATCGTGTCATCACCCTTTATCACTTCTTCCGCCAGTT
CCACGTTTTGTTTGTTCAGGGCTTCCGTGGCTTTGTCTATGGCCTCCTGGACGAGTTT
TGCCATTTTTATTACCTGTTCCTTTGTCTCTTCAAGTTCTTTGAAGAGTTTCATaatagt
attaatatATG

    gmhA --- aq_909


Gene: gmhA     GI: 15606238     BI number: aq_908     GOG: COG0279     Description: phosphoheptose isomerase
Gene: aq_909     GI: 15606239     BI number: aq_909     GOG: COG0061     Description: hypothetical protei


 AC
C  T
T  T
A  C
T  T
T  T
T  C
C  C
C  G
C  C
A  C
C  A
 TG
 AT
C  T
T  C
 GC
 TA
 GC
 CG                   C
|  T                C  T
|  T                 GC
|  T                 GC
|  T        C       T  |
|  G      C  G       AT
|  T      T  T       TG
|  T       TG        CG
|  T       CG        TA
|  G       GC        GC
|  T       GT        TG
|  T       GT        TA
T  C       AT        TG
A  A       CG       |  T
 TG       |  T      |  T
 CG       T  C      |  T
 TG       T  T      |  T
 GC       G  A       CG
 GT       T  T       GC
 AT        TG        GC
 GC        TG        TA
 GC        GC        GT
                        TTTTATTACCTGTTCCTTTGTCTCTTCAAGTTCTTTGAAGAGTTTCATaatagtattaatatATG
                                                                        Orthologous genes that have a predicted attenuator, grouped in COG families

[G] COG0279 Phosphoheptose isomerase ... can be seen here
[G] COG0061 Predicted sugar kinase ... can be seen here

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