                                                                        Gene putatively regulated by attenuation in A_tumefaciens_C58_UWash_linear

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:50 nt.     Distance to run of Ts=0 nt.   Size=20 nt.     Delta G=-16.30 kcal/mol
Antiterminator: Size=37 nt.     Delta G= -7.60 kcal/mol
Anti-antiterminator:   Size=33 nt.     Delta G= -9.70 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

TCGTGACCGAATGGGGCAAAACGCCGATCCAAATGGTGCAGAACCTGATGGCCAACGA
ACCGCAGATCGCCAACAAGACGCTTGGCATCGTGCTCAACAAGACCGACATGACGGAA
TTGCAGCGTTATGCCGGCCCCGGCGGCTCGGAGCATTATCACGAGAAATTCTCGGCCT
ATTACGGCGACGCAAAGCCGCCCGTAAAGGAAGATGCCTGAtcatgaaacggcctggtgaaaaccgggcc
ttttttctgctagggtacgatcgataaaccgatggcattgcccggcgaaatgcgcaTTG

    Atu4048 Gene: Atu4048     GI: 17937744     BI number: Atu4048     GOG: COG0111     Description: 2-hydroxyacid dehydrogenas            GA           A  T   A       A  G C  A       GC G  A       GC C  G       AT A  C      |  G GC       |  A CG       A  t |  C      A  c GC        Ta        aa GC        Gt       g  a CG        Cg        ta AT       |  a       gc TA       C  a       gc TA       C  a       tg A  |       Gc        cg TA        Cg        cg CG        Cg        gc CG        Gc        gc                         ttttttctgctagggtacgatcgataaaccgatggcattgcccggcgaaatgcgcaTTG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [HE] COG0111 Phosphoglycerate dehydrogenase and related dehydrogenases ... can be seen here     ..................................................................................................................