|
Organism
|
USS
|
N
|
R
|
G (%)
|
U
|
P (%)
|
|---|
|
Neisseria
| | | | | | |
|
N. meningitidis Z2491
|
5'-GCCGTCTGAA-3'
|
1,892
|
827
|
40
|
469
|
57
|
|
N. meningitidis MC58
|
5'-GCCGTCTGAA-3'
|
1,935
|
801
|
39
|
444
|
55
|
|
N. gonorrhoeae FA 1090
|
5'-GCCGTCTGAA-3'
|
1,965
|
828
|
41
|
451
|
54
|
|
Pasteurellaceae
| | | | | | |
|
H. influenzae
|
5'-AAGTGCGGT-3'
|
1,471
|
644
|
39
|
148
|
23
|
|
H. influenzae 86 028NP
|
5'-AAGTGCGGT-3'
|
1,516
|
668
|
37
|
147
|
22
|
|
P. multocida
|
5'-AAGTGCGGT-3'
|
927
|
796
|
40
|
133
|
17
|
|
M. succiniciproducens MBEL55E
|
5'-AAGTGCGGT-3'
|
1,485
|
848
|
36
|
248
|
29
|
|
H. ducreyi 35000HP
|
5'-AAGCGGT-3'
|
1,371
|
530
|
31
|
84
|
16
|
- Column N gives number of USS instances in the genome. Column R gives the number of genes followed by a high-confidence terminator, and column G gives this as a percentage of the total number of genes. These genes are the most likely operon ends. Column U gives the number of these likely operon ends for which the best high-confidence terminator contains at least one exact match to the USS motif or its reverse complement. Column P gives this number as a percentage of the likely operon ends (P = U/G). (Because of the requirements for high-confidence terminators, the USS motif likely pairs with a similar, but perhaps imperfect, USS motif on the opposite side of the hairpin stem.) A large fraction of predicted operon ends have a terminator that contains a USS signal. For H. ducreyi the motif AAGCGGT is not known to be a USS; however, its prevalence in the genome and similarity to the USS motif in other Pasteurellaceae lead us to conjecture that it functions as a USS. Only 1% of the likely operon ends in H. ducreyi had a terminator containing the USS motif found in the other Pasteurellaceae.
