Gene putatively regulated by attenuation in C_caviae
Characteristics of the secondary structures
Terminator: Distance from promoter:106 nt. Distance to gene:120 nt. Distance to run of Ts=1 nt. Size=24 nt. Delta G= -9.90 kcal/mol
Antiterminator: Distance from promoter:105 nt. Size=16 nt. Delta G= -5.20 kcal/mol
Anti-antiterminator: Distance from promoter:58 nt. Size=56 nt. Delta G=-11.66 kcal/mol
Nomenclature/Definitions
The most likely promoter is: CTGATG-TACAAT. It has a score value of 60.91 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
CTGATGTCACACGTCATCTAGATTATACAATTTATCCCGGCTCAATGGTCTGTGGGCT
GTCTAAGCTTGTAATAAAGTGTCATGGGAAAGCTTGCGGAAAATCTTTATTTAATGGC
ATTTCCGGATCTATAGATTTAGCGCGTGCACGTGTTTGTGAGCGCATTTTATCTAGTT
TATCTTAAtctttaagtttgtctatttcacctctttctctattgacgggatcgtattgatagtgataaaccttttgaaaacgaacactgaaata
tctctgaattaggtttacgATG
CCA00806
Gene: CCA00806 GI: 29840563 BI number: CCA00806 GOG: NOG05022 Description: polymorphic outer membrane protein D family protein/autotransporte
T
A T
C T
GC
GC
TG
A G
A A
T T
T C
T T
A A
T T
T |
TA
CG
TA GT
AT T T
AT GT
AT CG
A A AT
G G GC CG
GC T A G A
CG GC T |
GC CG G |
TG GT CG
T T CG GC
CG GT CG
GC AT GC
ATTTTATCTAGTTTATCTTAAtctttaagtttgtctatttcacctctttctctattgacgggatcgtattgatagtgataaaccttttgaaaacgaacactgaaatatctctgaattaggtttacgATG
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