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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 9360 | 5' | -55.6 | NC_002512.2 | + | 103690 | 0.72 | 0.658662 |
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Target: 5'- -----aGAGGGCGGCGGaCGCGGCGGg -3' miRNA: 3'- uaucucCUCCCGUCGUCaGCGUUGUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 228106 | 0.73 | 0.597599 |
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Target: 5'- --cGAGGAGGGCGuCGGcCGCAACGu -3' miRNA: 3'- uauCUCCUCCCGUcGUCaGCGUUGUc -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 191285 | 0.74 | 0.567305 |
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Target: 5'- --cGGGGAGGGCGGCGGg-GCGGgGGa -3' miRNA: 3'- uauCUCCUCCCGUCGUCagCGUUgUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 107732 | 0.74 | 0.547324 |
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Target: 5'- -cAGAGGuGGGU-GCGGUgGCAGCGGa -3' miRNA: 3'- uaUCUCCuCCCGuCGUCAgCGUUGUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 92591 | 0.75 | 0.537417 |
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Target: 5'- -gGGAGGGGcGGCGGUcccgaggccGGUCGCGACGa -3' miRNA: 3'- uaUCUCCUC-CCGUCG---------UCAGCGUUGUc -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 102467 | 0.75 | 0.534456 |
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Target: 5'- -cGGAGGAGGGCgcgcccgucgcgguGGCGGUCccgcagGCGGCGGa -3' miRNA: 3'- uaUCUCCUCCCG--------------UCGUCAG------CGUUGUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 127092 | 0.75 | 0.527571 |
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Target: 5'- -gAGcGGAGGGCGGCGG-CgGCGGCGGg -3' miRNA: 3'- uaUCuCCUCCCGUCGUCaG-CGUUGUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 114047 | 0.75 | 0.51682 |
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Target: 5'- cGUAGAGGGcGGGCccggaacAGCGGUaggCGCAGCGGg -3' miRNA: 3'- -UAUCUCCU-CCCG-------UCGUCA---GCGUUGUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 113265 | 0.77 | 0.398807 |
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Target: 5'- --cGAGGGGGGCggccggcggGGCAGcCGCGGCGGg -3' miRNA: 3'- uauCUCCUCCCG---------UCGUCaGCGUUGUC- -5' |
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| 9360 | 5' | -55.6 | NC_002512.2 | + | 195131 | 0.79 | 0.320051 |
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Target: 5'- -cGGGGGAGaGGCGGU-GUCGCGACAGc -3' miRNA: 3'- uaUCUCCUC-CCGUCGuCAGCGUUGUC- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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