miRNA: 3'- -GGCaCGacaACCGACA-----------CAGGCGGUau -5'
miRNA: 3'- gGCACGacaACCGaCACAGGCG--GUAU- -5'
miRNA: 3'- -GGCa-CGa--CAACCGaCACAgGCGGUau -5'
miRNA: 3'- -GGCA-CGACAa---CCGaCACAGGCGGUau -5'
miRNA: 3'- -GGCACGACAACCGACACAGGCGGUAU- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 24358 | 5' | -55.4 | NC_005264.1 | + | 26011 | 0.66 | 0.910412 |
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Target: 5'- aUCG-GCgcgUGGCUGUaaucgccaagcGUCCGCCAg- -3' miRNA: 3'- -GGCaCGacaACCGACA-----------CAGGCGGUau -5' |
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| 24358 | 5' | -55.4 | NC_005264.1 | + | 84636 | 0.66 | 0.904237 |
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Target: 5'- aCGUGCcccUGGCgGUGUCCGUagCGUAu -3' miRNA: 3'- gGCACGacaACCGaCACAGGCG--GUAU- -5' |
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| 24358 | 5' | -55.4 | NC_005264.1 | + | 108667 | 0.72 | 0.646876 |
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Target: 5'- gCCGagGCgagGUUGGCgGUGUgCGCCAg- -3' miRNA: 3'- -GGCa-CGa--CAACCGaCACAgGCGGUau -5' |
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| 24358 | 5' | -55.4 | NC_005264.1 | + | 59779 | 0.77 | 0.386464 |
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Target: 5'- gCCGUgGCUGUccacGGCcGUGUCCGCCGc- -3' miRNA: 3'- -GGCA-CGACAa---CCGaCACAGGCGGUau -5' |
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| 24358 | 5' | -55.4 | NC_005264.1 | + | 138781 | 1.09 | 0.003328 |
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Target: 5'- gCCGUGCUGUUGGCUGUGUCCGCCAUAg -3' miRNA: 3'- -GGCACGACAACCGACACAGGCGGUAU- -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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