                                                                        Gene putatively regulated by attenuation in C_caviae

                                                                        Characteristics of the secondary structures
Terminator:    Distance to gene:136 nt.     Distance to run of Ts=3 nt.   Size=23 nt.     Delta G= -7.40 kcal/mol
Antiterminator: Size=46 nt.     Delta G= -4.85 kcal/mol
Anti-antiterminator:   Size=61 nt.     Delta G=-10.81 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

AAGAAAAAAGCAGGCTAGACAAAATGCTGGAACGATAGTTTTTCCAGAAAACAGGAAA
AAATAAATAAAAACACCAAGTTCGGCAGCCATTAATAATAAACATCCAAACAACAATA
AGCTATGCCGCATGAGGTATTGGCGTAATTTTTGGTGTGTTTTTTTACATAAAGCTTC
TAGAGTTGGGAGAGCATTATTTAACTTCATgtatcttacaaactcatcttaattttacgggaaattatgcaactaatt
gttttaatgcaatagctccaatattattaaataataaagcttgtacctATG

    hemH Gene: hemH     GI: 29839905     BI number: CCA00137     GOG: COG0276     Description: ferrochelatas AA A  A G  C A  A CG CG TA TA TA TA TA |  A |  T |  A       TC |  A      A  C |  A      C  A |  T      A  A |  A      A  A |  A      A  C |  A      T  A |  A      A  A |  A      A  C G  C      T  A A  A      A  A T  C       AT        AT A  C       TA       C  G G  A       TA       G  A C  A      A  G       CG A  G      C  C       CG AT       C  T       GT GT       G  A       TA GC        AT       |  T TG        CG        AT CG        GC        TG GC        GC        CG TA        CG        GC                         GTAATTTTTGGTGTGTTTTTTTACATAAAGCTTCTAGAGTTGGGAGAGCATTATTTAACTTCATgtatcttacaaactcatcttaattttacgggaaattatgcaactaattgttttaatgcaatagctccaatattattaaataataaagcttgtacctATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [H] COG0276 Protoheme ferro-lyase (ferrochelatase) ... can be seen here     ..................................................................................................................                                                                         Gene putatively regulated by attenuation in C_caviae                                                                         Characteristics of the secondary structures Terminator:    Distance to gene:149 nt.     Distance to run of Ts=3 nt.   Size=23 nt.     Delta G= -7.40 kcal/mol Antiterminator: Size=46 nt.     Delta G= -4.85 kcal/mol Anti-antiterminator:   Size=61 nt.     Delta G=-10.81 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 AAGAAAAAAGCAGGCTAGACAAAATGCTGGAACGATAGTTTTTCCAGAAAACAGGAAA AAATAAATAAAAACACCAAGTTCGGCAGCCATTAATAATAAACATCCAAACAACAATA AGCTATGCCGCATGAGGTATTGGCGTAATTTTTGGTGTGTTTTTTTACATAAAGCTTC TAGAGTTGGGAGAGCATTATTTAACTTCATgtatcttacaaactcatcttaattttacgggaaattatgcaactaatt gttttaatgcaatagctccaatattattaaataataaagcttgtacctATG     hemH Gene: hemH     GI: 29839905     BI number: CCA00137     GOG: COG0276     Description: ferrochelatas AA A  A G  C A  A CG CG TA TA TA TA TA |  A |  T |  A       AT |  A      C  C |  A      A  C |  T      A  A |  A      A  A |  A      T  A |  A      A  C |  A      A  A |  A      T  A G  C      A  C A  A      A  A T  C       TA        AT A  C       TT       C  G G  A       AA       G  A C  A      C  A       CG A  G      C  G       CG AT       G  C       GT GT       A  T       TA GC        CA       |  T TG        GT        AT CG        GG        TG GC        CC        CG TA        TC        GC                         GTAATTTTTGGTGTGTTTTTTTACATAAAGCTTCTAGAGTTGGGAGAGCATTATTTAACTTCATgtatcttacaaactcatcttaattttacgggaaattatgcaactaattgttttaatgcaatagctccaatattattaaataataaagcttgtacctATG                                                                         Orthologous genes that have a predicted attenuator, grouped in COG families [H] COG0276 Protoheme ferro-lyase (ferrochelatase) ... can be seen here     ..................................................................................................................