miRNA: 3'- auaaaGGgGGGccAUGGGGGAGGGua -5'
miRNA: 3'- auaaagGGGGGCCAUGGG--GGa--GGGUa -5'
miRNA: 3'- -AUAAAGGGGGGCCAUGGGGGAGGGUA- -5'
Results 1 - 3 of 3 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 | |||||||
| 6306 | 5' | -60.1 | NC_001844.1 | + | 118520 | 0.66 | 0.70453 |
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Target: 5'- ----aCCgCCCauUGCCCCCUCCCu- -3' miRNA: 3'- auaaaGGgGGGccAUGGGGGAGGGua -5' |
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| 6306 | 5' | -60.1 | NC_001844.1 | + | 136669 | 0.67 | 0.6544 |
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Target: 5'- -----aCCCCUGGUACCCggCCgcgCCCGg -3' miRNA: 3'- auaaagGGGGGCCAUGGG--GGa--GGGUa -5' |
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| 6306 | 5' | -60.1 | NC_001844.1 | + | 118930 | 1.03 | 0.002425 |
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Target: 5'- aUAUUUCCCCCCGGUACCCCCUCCCAUu -3' miRNA: 3'- -AUAAAGGGGGGCCAUGGGGGAGGGUA- -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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