                                                                        Gene putatively regulated by attenuation in C_burnetii

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:127 nt.     Distance to run of Ts=0 nt.   Size=17 nt.     Delta G= -8.20 kcal/mol
Antiterminator: Size=72 nt.     Delta G= -7.95 kcal/mol
Anti-antiterminator:   Size=41 nt.     Delta G= -8.20 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

atcaaagattcgtttatcctttttaaactcagagccaaccatatttcaccgctatcgataggtaatattttcagcagaatgatagcaggccgcgccaatg
atcgccatgcacaaacccaatccacccaaactgccgctgagagcggtaattttttgatttaaaaccggttttttactatcccgctatactatagttatag
aaccaatcaaaggaggaatcgttatgcaagtaaaggaagttatgtccaaaaaaccagcttacttacccctacgagcagcgtgaaagaagctgccaagaaa
ATG

    CBU1331 --- CBU1332 --- CBU1333 Gene: CBU1331     GI: 29654628     BI number: CBU1331     GOG: COG0517     Description: CBS domain protein Gene: CBU1332     GI: 29654629     BI number: CBU1332     GOG: -------     Description: hypothetical protein Gene: CBU1333     GI: 29654630     BI number: CBU1333     GOG: COG0730     Description: membrane protein, putativ            at           a  g           c  a           c  t            gc            cg            gc           |  c           |  a           c  t            cg            gc           |  a           |  c           |  a           |  a           |  a           |  c           |  c           |  c           |  a           |  a           |  t           |  c           |  c           |  a           |  c           |  c           |  c           |  a tt       |  a a  t      |  a t  t       gc a  c       at a  a       cg tg        gc gc       a  c g  a      t  | a  g      a  | t  a      g  | a  a      t  | gt       a  | cg       a  |        a ta       g  |      g  g at       a  |      t  a ta        cg        cg cg        gc        gc gc        at        cg |  a       cg        cg cg        ta        gt cg        tg        ta                         attttttgatttaaaaccggttttttactatcccgctatactatagttatagaaccaatcaaaggaggaatcgttatgcaagtaaaggaagttatgtccaaaaaaccagcttacttacccctacgagcagcgtgaaagaagctgccaagaaaATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG0517 FOG: CBS domain ... can be seen here [R] COG0730 Predicted permeases ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in C_burnetii                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:146 nt.     Distance to run of Ts=0 nt.   Size=17 nt.     Delta G= -8.20 kcal/mol Antiterminator: Size=72 nt.     Delta G= -7.95 kcal/mol Anti-antiterminator:   Size=37 nt.     Delta G= -7.20 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 atcaaagattcgtttatcctttttaaactcagagccaaccatatttcaccgctatcgataggtaatattttcagcagaatgatagcaggccgcgccaatg atcgccatgcacaaacccaatccacccaaactgccgctgagagcggtaattttttgatttaaaaccggttttttactatcccgctatactatagttatag aaccaatcaaaggaggaatcgttatgcaagtaaaggaagttatgtccaaaaaaccagcttacttacccctacgagcagcgtgaaagaagctgccaagaaa ATG     CBU1331 --- CBU1332 --- CBU1333 Gene: CBU1331     GI: 29654628     BI number: CBU1331     GOG: COG0517     Description: CBS domain protein Gene: CBU1332     GI: 29654629     BI number: CBU1332     GOG: -------     Description: hypothetical protein Gene: CBU1333     GI: 29654630     BI number: CBU1333     GOG: COG0730     Description: membrane protein, putativ            at           a  c           c  c           c  a            cc            ac            ac           |  a           |  a           a  a            cc            at           |  g           |  c           |  c           |  g           |  c           |  t           |  g           |  a           |  g           |           |           |           |           |           |           |           |           |           |           |   g        c c  c       g cg        t gc        a gc       c   a  a      c  | c  a      g  | g  t      c  | a  g      t  | ta       a  | at       g  |        a gc       t  |      g  g tg       a  |      t  a a  c       a        cg a  c       c        gc g  a       c        cg at        g        cg cg        c        gt gc        g        ta                         attttttgatttaaaaccggttttttactatcccgctatactatagttatagaaccaatcaaaggaggaatcgttatgcaagtaaaggaagttatgtccaaaaaaccagcttacttacccctacgagcagcgtgaaagaagctgccaagaaaATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [R] COG0517 FOG: CBS domain ... can be seen here [R] COG0730 Predicted permeases ... can be seen here     ..................................................................................................................