                                                                        Gene putatively regulated by attenuation in A_tumefaciens_C58_UWash_linear

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:166 nt.     Distance to run of Ts=1 nt.   Size=26 nt.     Delta G= -8.80 kcal/mol
Antiterminator: Size=44 nt.     Delta G= -6.44 kcal/mol
Anti-antiterminator:   Size=31 nt.     Delta G= -6.00 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

CCTGTTTCAGCTTCGGATCGGTCGCTGCCCGCGCCATTTTCGGCAGGGCTTTCAGGAT
CTGCCTTTCGGCGAAATAGATATCCTTCAGCGTGTCATAAAACAGGTCGTCGAGTTTC
TTCTCGGCCATCGTTTCTTCTCCCATGATAGTGAAACTGTGTGACGTGCGTCCATGCG
CACGGGAAACAAACCTTTCGCCGCCGCAATGGTTCCGGCTCCGTTGCGTGCAACCTTT
ATATTGTCGCGCGGAACCAACGTCTCTCTGCACacttagtgtgagacatttcggcaggagagacgagcATG

    Atu4137 Gene: Atu4137     GI: 17937832     BI number: Atu4137     GOG: COG1285     Description: conserved hypothetical protei            TC           T  A           C  G           C  C            TG            AT TT        TG T  C       AT CG        GC CG       |  A GC       |  T |  G      |  A |  A      |  A       TC |  A      |  A      T  T |  A      |  A      T  T |  T      A  C       GC TA       T  A       AT CG       A  G       GC TA       A  G       CG |  T       AT        TG |  A       GC        GC AT        CG       C  C GC        GT        TA GC        GC        GT AT        CG        GC                         GTTTCTTCTCCCATGATAGTGAAACTGTGTGACGTGCGTCCATGCGCACGGGAAACAAACCTTTCGCCGCCGCAATGGTTCCGGCTCCGTTGCGTGCAACCTTTATATTGTCGCGCGGAACCAACGTCTCTCTGCACacttagtgtgagacatttcggcaggagagacgagcATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [S] COG1285 Uncharacterized membrane protein ... can be seen here     ..................................................................................................................