Gene putatively regulated by attenuation in B_aphidicola_Sg

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:92 nt.    Distance to gene:26 nt.     Distance to run of Ts=0 nt.   Size=22 nt.     Delta G= -6.00 kcal/mol
Antiterminator:    Distance from promoter:29 nt. Size=74 nt.     Delta G= -7.31 kcal/mol
Anti-antiterminator:   Size=50 nt.     Delta G= -5.46 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: TTTAAa-tatatt. It has a score value of 76.97 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

TTTAAaaattaattaatatcttttatattaagaaaaatcatatataaatataaacaaaatatgaaagttttaatatataaaaaaatcctcaataatt
ttttttcttatctctttatatattgatcagcgtatcaaacgctatctttttcattataattaaggaaaataaaaaaTTG

    pyrB --- pyrI


Gene: pyrB     GI: 21672632     BI number: BUsg357     GOG: COG0540     Description: aspartate carbamoyltransferase catalytic chain
Gene: pyrI     GI: 21672633     BI number: BUsg358     GOG: COG1781     Description: aspartate carbamoyltransferase regulatory chai


           tt
          a  t
          a  t
          t  t
          a  t
          a  t
          c  t
          t  c
          c  t
          c  t
          t  a
          a  t
  t       a  c
a  a      a  t
t  a      a  c
a  a       at
a  c       at
a  a       at
t  a       ta
a  a       at
 ta        ta
 at        at
 ta        ta
 at        at
 cg        at
 ta        tg
a  a       ta         c
a  a      t  t      t  a
a  g      t  c      a  a
a  |      g  a       ta
 at       a  g       gc
 gt       a  |       cg
 at       a  |       gc
 at        gc        at
 ta        tg       c  |
 ta        at        ta
 at        ta        at
 ta        at        gc
                        tttttcattataattaaggaaaataaaaaaTTG
                                                                        Orthologous genes that have a predicted attenuator, grouped in COG families

[F] COG0540 Aspartate carbamoyltransferase, catalytic chain ... can be seen here
[F] COG1781 Aspartate carbamoyltransferase, regulatory subunit ... can be seen here

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