                                                                        Gene putatively regulated by attenuation in C_caviae

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:79 nt.    Distance to gene:12 nt.     Distance to run of Ts=0 nt.   Size=40 nt.     Delta G=-11.30 kcal/mol
Antiterminator:    Distance from promoter:75 nt. Size=18 nt.     Delta G= -5.00 kcal/mol
Anti-antiterminator:    Distance from promoter:46 nt.    Size=36 nt.     Delta G= -5.60 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: ATgaca-aataat. It has a score value of 63.59 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

ATgacaactacaaaaaaatcttaataattgaagtactatcttaactatcggtcttcttatatgcaagattccccttctatgattagttctatacagaaa
aaataatggagaaaaatccatttttagattaaaatggatcgttttttctttttaaaggttttcaGTG

    CCA00430 Gene: CCA00430     GI: 29840192     BI number: CCA00430     GOG: -------     Description: hypothetical protei                      ga                     a  t                     t  t ta                  ta a  c                 ta ta                  ta cg                  ta ta                  at ta                  cg g  a                 cg a  a                 ta ta                  at ta        aa       |  c at       a  a      |  g g  a      g  a       at ta        at        at at        gc        at tg        gc        at cg        ta        gt ta        at        at tg        at        gc                         tttttaaaggttttcaGTG     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in C_caviae                                                                         Characteristics of the secondary structures Terminator:    Distance from promoter:86 nt.    Distance to gene:18 nt.     Distance to run of Ts=1 nt.   Size=24 nt.     Delta G= -7.60 kcal/mol Antiterminator:    Distance from promoter:49 nt. Size=18 nt.     Delta G= -5.00 kcal/mol                                                                         Nomenclature/Definitions The most likely promoter is: ATgaca-aataat. It has a score value of 63.59 and is shown in blue 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 ATgacaactacaaaaaaatcttaataattgaagtactatcttaactatcggtcttcttatatgcaagattccccttctatgattagttctatacagaaa aaataatggagaaaaatccatttttagattaaaatggatcgttttttctttttaaaggttttcaGTG     CCA00430 Gene: CCA00430     GI: 29840192     BI number: CCA00430     GOG: -------     Description: hypothetical protei            ga           a  t           t  t gt        ta a  t       ta t  c       ta tt        ta aa        at gt        cg ta        cg ac        ta ta        at             cgttttttctttttaaaggttttcaGTG     ..................................................................................................................