                                                                        Gene putatively regulated by attenuation in A_tumefaciens_C58_UWash_linear

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:31 nt.    Distance to gene:0 nt.     Distance to run of Ts=3 nt.   Size=24 nt.     Delta G= -7.50 kcal/mol
Antiterminator:    Distance from promoter:15 nt. Size=27 nt.     Delta G= -3.40 kcal/mol
Anti-antiterminator:   Size=50 nt.     Delta G= -6.90 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: atgaca-caaatt. It has a score value of 60.24 and is shown in blue
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

atgacaatgtggttaggttaggcaaatttgaaaacataaacgcgccgttccgacaattatcttgaactgcccaggcagaaagaccgttttATG

    Atu4354 Gene: Atu4354     GI: 17938043     BI number: Atu4354     GOG: COG1409     Description: hypothetical protei   g g  c a  a ta ta gt gt at tg ta g  a g  a ta gc        at ta       a  t       ca at       c  a      c  g |  a       at        cg |  a       gc        gc a  a      |  t       ta c  c      c  t       cg a  g       cg       a  a gc        ta       a  | tg        ta       g  | a  |       gc        ta gc       c  t       ta gc        cg        cg tg        gc        ta                         ccgttttATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG1409 Predicted phosphohydrolases ... can be seen here     ..................................................................................................................