miRNA: 3'- gUUcUCUGACA---ACCGGUGUa-UGUCaa -5'
miRNA: 3'- guUCUCUGacaACCGGUGUA--UGUCaa -5'
miRNA: 3'- gUUCUCUGACA-------ACCGGUguaUGuCAA- -5'
miRNA: 3'- -GUUCUCUGA-----------CAaCCGGUGUa-UGUCaa -5'
Results 1 - 4 of 4 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 | |||||||
| 6282 | 5' | -49.5 | NC_001844.1 | + | 71644 | 0.66 | 0.996179 |
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Target: 5'- uGAaAGGCUGUuauUGGCCACAccGCAGc- -3' miRNA: 3'- gUUcUCUGACA---ACCGGUGUa-UGUCaa -5' |
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| 6282 | 5' | -49.5 | NC_001844.1 | + | 135614 | 0.66 | 0.993847 |
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Target: 5'- -uAGAGGCga-UGGCCGCGUccGCGGg- -3' miRNA: 3'- guUCUCUGacaACCGGUGUA--UGUCaa -5' |
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| 6282 | 5' | -49.5 | NC_001844.1 | + | 30207 | 0.66 | 0.993753 |
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Target: 5'- gGAGAGACUGUgggucuaUGGCCA---GCuGUUa -3' miRNA: 3'- gUUCUCUGACA-------ACCGGUguaUGuCAA- -5' |
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| 6282 | 5' | -49.5 | NC_001844.1 | + | 143055 | 0.68 | 0.98395 |
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Target: 5'- aCGAGAGGCUucccgggaacaGUgGGCCACAagGCGGg- -3' miRNA: 3'- -GUUCUCUGA-----------CAaCCGGUGUa-UGUCaa -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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