                                                                        Gene putatively regulated by attenuation in C_burnetii

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:96 nt.    Distance to gene:1 nt.     Distance to run of Ts=1 nt.   Size=17 nt.     Delta G= -6.70 kcal/mol
Antiterminator:    Distance from promoter:56 nt. Size=48 nt.     Delta G= -5.02 kcal/mol
Anti-antiterminator:    Distance from promoter:2 nt.    Size=60 nt.     Delta G=-20.80 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: TTGAAA-taaggt. 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

TTGAAAAGTTTTTTCCATgaactaaggttaagccatttaattgcgagaagaaagcgccatcccgcgcgagttctcgcaaaagaagtt
gttatttgtagctcatctaaaagcggtgtactatctactcccaatcaaagggaggttttgtATG

    CBU1119 --- etfB --- etfA --- ald Gene: CBU1119     GI: 29654426     BI number: CBU1119     GOG: COG0412     Description: dienelactone hydrolase family protein Gene: etfB     GI: 29654425     BI number: CBU1118     GOG: COG2086     Description: electron transfer flavoprotein, beta subunit Gene: etfA     GI: 29654424     BI number: CBU1117     GOG: COG2025     Description: electron transfer flavoprotein, alpha subunit Gene: ald     GI: 29654423     BI number: CBU1116     GOG: COG0686     Description: alanine dehydrogenas tc a  c c  c cg gc cg gc         a a  g      a  a a  a      a  g a  g      t  c g  |       cg at        tg at        at gc        cg at       t  t gc       c  a cg        gc gc        at ta        ta ta        gt |  a      |  c a  a      t  t a  g      t  a        c ta       t  c      t  a ta       a  t      a  a tg       t  c      a  a at       t  c       cg c  t       gc        cg cg        ta        cg gt        ta        ta at        gt        cg                         gttttgtATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [Q] COG0412 Dienelactone hydrolase and related enzymes ... can be seen here [C] COG2086 Electron transfer flavoprotein, beta subunit ... can be seen here [C] COG2025 Electron transfer flavoprotein, alpha subunit ... can be seen here [E] COG0686 Alanine dehydrogenase ... can be seen here     ..................................................................................................................