                                                                        Gene putatively regulated by attenuation in B_longum

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:51 nt.     Distance to run of Ts=2 nt.   Size=29 nt.     Delta G=-23.30 kcal/mol
Antiterminator: Size=28 nt.     Delta G= -7.00 kcal/mol
Anti-antiterminator:   Size=51 nt.     Delta G=-13.10 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

AGGCTTCCTGTTCGCCTGAtcacgtgcgtgtttgttcgtggaaagcacacgatgcgagacgcgacatggcgtagcctttcggtaaa
taccgacagtatggtataaatgaacacttgtgggccgaaagcccacgacTCCCCCATGGTGTAATGGCAGCACACGGGT
CTTTGGAACCCTTTGTCTTGGTTCGAGTCCAGGTGGGGGAAcggctgatggccgctcgacatccgggcgg
ccatctattgttttgaggtgtttccaccctcaatagacattccgatcgaagggaatacgtcagttATG

    Gln --- 2 Gene: glmU     GI: 23465536     BI number: BL0964     GOG: COG1207     Description: UDP-N-acetylglucosamine pyrophosphorylase Gene: BL0965     GI: 23465537     BI number: BL0965     GOG: COG0799     Description: hypothetical protein with duf14   G C  A T  G T  T GC GC TA TG CG T  T G  | T  | T  | TG         a         a CG       g  t      c  t CG       t  g      a  c CG        cg        gc A  G       gc        cg A  A       gc        tg G  A       cg        cg Gc       A  c       gc Tg        At        cg Tg        Gc        cg |  c      G  g       gc T  t      G  a       gc Cg       G  |       ta Ta        Gc        at Gt        Ta        gc                         tattgttttgaggtgtttccaccctcaatagacattccgatcgaagggaatacgtcagttATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [M] COG1207 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) ... can be seen here [S] COG0799 Uncharacterized homolog of plant Iojap protein ... can be seen here     ..................................................................................................................