                                                                        Gene putatively regulated by attenuation in A_tumefaciens_C58_Cereon_linear

                                                                        Characteristics of the secondary structures
Terminator:    Distance from promoter:43 nt.    Distance to gene:58 nt.     Distance to run of Ts=2 nt.   Size=34 nt.     Delta G= -8.60 kcal/mol
Antiterminator:    Distance from promoter:23 nt. Size=26 nt.     Delta G= -3.70 kcal/mol

                                                                        Nomenclature/Definitions
The most likely promoter is: TTCTTT-taaatt. It has a score value of 64.93 and is shown in blue
Bases shared by the antitermination and termination structures are shown in red
The sequences of the antiterminator and terminator structures are underlined
Coding regions are in CAPS, non-coding regions are in lower case

TTCTTTTAATGCGCATattttggtaaatttcagaaaataattctattactctttgacaaattccataaaattagtcaactaatgtccg
tgcctttgcgggctgatttatgttttctagattgcggactggagccgatgtcgaattcgaaaagaatattatcgcaggcgagacggGTG

    AGR_L_2785 --- AGR_L_2782 --- AGR_L_2781 --- AGR_L_2779 --- AGR_L_2777 --- AGR_L_2776 --- AGR_L_2774 Gene: AGR_L_2785     GI: 15891501     BI number: AGR_L_2785     GOG: COG0601     Description: AGR_L_2785p Gene: AGR_L_2782     GI: 15891500     BI number: AGR_L_2782     GOG: COG1173     Description: AGR_L_2782p Gene: AGR_L_2781     GI: 15891499     BI number: AGR_L_2781     GOG: COG0444     Description: AGR_L_2781p Gene: AGR_L_2779     GI: 15891498     BI number: AGR_L_2779     GOG: COG4608     Description: AGR_L_2779p Gene: AGR_L_2777     GI: 15891497     BI number: AGR_L_2777     GOG: COG0667     Description: AGR_L_2777p Gene: AGR_L_2776     GI: 15891496     BI number: AGR_L_2776     GOG: COG1960     Description: AGR_L_2776p Gene: AGR_L_2774     GI: 15891495     BI number: AGR_L_2774     GOG: COG0583     Description: AGR_L_2774            ct           c  t           g  t            tg            gc            cg            cg at        tg c  a       gc c  a      t  | ta       a  | ta       a  | at       t  | at       c  | a  a      a  | cg        at at        cg gc        ta ta        gt ta        at             tatgttttctagattgcggactggagccgatgtcgaattcgaaaagaatattatcgcaggcgagacggGTG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [EP] COG0601 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components ... can be seen here [EP] COG1173 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components ... can be seen here [EP] COG0444 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component ... can be seen here [E] COG4608 ABC-type oligopeptide transport system, ATPase component ... can be seen here [C] COG0667 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) ... can be seen here [I] COG1960 Acyl-CoA dehydrogenases ... can be seen here [K] COG0583 Transcriptional regulator ... can be seen here     ..................................................................................................................