                                                                        Gene putatively regulated by attenuation in C_tepidum_TLS

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:82 nt.    Distance to gene:38 nt.     Distance to run of Ts=0 nt.   Size=27 nt.     Delta G= -8.20 kcal/mol
Antiterminator:    Distance from promoter:48 nt. Size=46 nt.     Delta G=-11.20 kcal/mol
Anti-antiterminator:    Distance from promoter:44 nt.    Size=24 nt.     Delta G= -6.60 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: Ttgttg-tacatt. It has a score value of 60.91 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

Ttgttgtgtcagtgctttattactacattatcacagtgatagtcgctctttttgcctcgatgttttcagatgccgctcgggtctcaactcctggacgtat
gactgccggatgagcttgatctggtttcggagaggcttttttatggattccgttacttccaacatctcaataccaaccatATG

    CT1586 --- CT1585 --- CT1584 --- CT1583 Gene: CT1586     GI: 21674404     BI number: CT1586     GOG: COG0811     Description: MotA/TolQ/ExbB proton channel family protein Gene: CT1585     GI: 21674403     BI number: CT1585     GOG: -------     Description: hypothetical protein Gene: CT1584     GI: 21674402     BI number: CT1584     GOG: -------     Description: hypothetical protein Gene: CT1583     GI: 21674401     BI number: CT1583     GOG: -------     Description: hypothetical protei            tg           a  a           t  c            gt            cg           a  |            gc            gc            tg            cg           |  a           |  t       tt            cg       g  t ca        ta        gc t  a       cg        tg c  c      a  c       cg t  t      a  t       ta gc       c  t      a  g gc       t  |      g  | gt        cg        ta cg        ta        tg t  g       gt        cg c  a       gc        gc gc        gt        at cg        cg        gt                         ttttatggattccgttacttccaacatctcaataccaaccatATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [U] COG0811 Biopolymer transport proteins ... can be seen here     ..................................................................................................................