                                                                        Gene putatively regulated by attenuation in T_thermophilus_HB27

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:92 nt.    Distance to gene:10 nt.     Distance to run of Ts=3 nt.   Size=24 nt.     Delta G=-25.10 kcal/mol
Antiterminator:    Distance from promoter:56 nt. Size=43 nt.     Delta G=-24.80 kcal/mol
Anti-antiterminator:    Distance from promoter:17 nt.    Size=52 nt.     Delta G=-27.90 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: TTGACG-TAGact. It has a score value of 60.24 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

TTGACGGAGCCCCCTCCCTCCCCGTAGactctagaccaactatgtggaccctagggcgctacttcggcttttattacccc
gccgggggcgccctgcggtccgcgtaggccataccgcgaaaagggcgccccctaaagggggcgcccaaggtttttgggagggaagccATG

    TTC0448 --- TTC0447 Gene: TTC0448     GI: 46198756     BI number: TTC0448     GOG: COG2877,COG2876     Description: phospho-2-dehydro-3-deoxyheptonate aldolase Gene: TTC0447     GI: 46198755     BI number: TTC0447     GOG: -------     Description: prephenate dehydrogenas tt a  a t  c t  c       ta t  c      g  g t  c       cg cg        gc gc       |  c gc       c  a cg       c  t tg        ta tg        gc cg        gc a  |       cg t  |       gc cg       |  g       aa gc       |  a      t  a cg       |  a       cg gc       |  a       cg gc        ta        cg gc        cg        cg at        cg        cg tg        cg        gc c  c       gc        cg cg        cg        gc cg        gc        gc at        gc        gc                         aaggtttttgggagggaagccATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [M] COG2877 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase ... can be seen here [E] COG2876 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase ... can be seen here     ..................................................................................................................