                                                                        Gene putatively regulated by attenuation in A_tumefaciens_C58_UWash_circular

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:102 nt.     Distance to run of Ts=1 nt.   Size=26 nt.     Delta G= -9.40 kcal/mol
Antiterminator: Size=27 nt.     Delta G= -4.60 kcal/mol
Anti-antiterminator:   Size=55 nt.     Delta G= -9.10 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

CGCAGGCTTTCTGCTGATTGCCGCCGCCCTCTTGACTTTTTGGGAGGCATTTTCCTGG
AGCATGGGCGAATGAttgaggatgtcgcgcaattTCAGCCAGCCGTCAGATACGTGCCATAAAGCC
AATCCCGGCCCCGCACCGGAGCCTCGTCTAGACTTCTGTTTTCACGGCGGAATTCACC
GCAATGTGACTTCTTTTCGCCATCCGGAAAGGGCATCCTCGCCCGGTTCGATAAAGCG
CCGGTGTCCATGCCGGAATCAAGGAGAGTGTGCATGAAACTGAAAACCATCACggcggccA
TG

    Atu0881 Gene: Atu0881     GI: 17934789     BI number: Atu0881     GOG: COG3909     Description: cytochrome C-55 TC A  C A  C CG CG GC A  C A  C A  C T  | A  | C  | CG GC TA |  C GC CG |  G       TC |  A      T  T       TT |  G       CG       A  C |  C       AT       A  A |  C       GT        GC |  T       AT        GC A  C      |  T       CG TG       |  C       GC AT       |  A      |  A GC       T  C      |  A AT        CG       G  T |  A       TG        CG CG        GC        AT TA        CG        CG GC        TG        TA                         CTTCTTTTCGCCATCCGGAAAGGGCATCCTCGCCCGGTTCGATAAAGCGCCGGTGTCCATGCCGGAATCAAGGAGAGTGTGCATGAAACTGAAAACCATCACggcggccATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [C] COG3909 Cytochrome c556 ... can be seen here     ..................................................................................................................