miRNA: 3'- -GUAGAAGUgauaCGugAaGUGAGUUC- -5'
miRNA: 3'- guagaaGUGAuACGUGAAGUGAGUuc -5'
miRNA: 3'- -GUAGAAGUGAUACGU----GAa--GUGAGUuc -5'
miRNA: 3'- -GUAGAAGUGAUACGUGAAGUGAGUUC- -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 | |||||||
| 9627 | 5' | -45.1 | NC_002577.1 | + | 60823 | 0.66 | 0.999996 |
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Target: 5'- uCGUCUUCAgacaGCugUaCGCUCGAGa -3' miRNA: 3'- -GUAGAAGUgauaCGugAaGUGAGUUC- -5' |
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| 9627 | 5' | -45.1 | NC_002577.1 | + | 121013 | 0.66 | 0.999991 |
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Target: 5'- -----aCGCU-UGCGCUUCGCUCGu- -3' miRNA: 3'- guagaaGUGAuACGUGAAGUGAGUuc -5' |
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| 9627 | 5' | -45.1 | NC_002577.1 | + | 80721 | 0.74 | 0.982419 |
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Target: 5'- aCGUCUUCGCUAUGCGaucuCUgggCACUUAu- -3' miRNA: 3'- -GUAGAAGUGAUACGU----GAa--GUGAGUuc -5' |
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| 9627 | 5' | -45.1 | NC_002577.1 | + | 101620 | 1.11 | 0.025569 |
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Target: 5'- cCAUCUUCACUAUGCACUUCACUCAAGa -3' miRNA: 3'- -GUAGAAGUGAUACGUGAAGUGAGUUC- -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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