miRNA: 3'- -CGAGAGAGG--UGUGGuua-AGaccUCAG- -5'
miRNA: 3'- cgAGA-GAGGUGUGGuuaAgaCCUCAG- -5'
miRNA: 3'- cGAGAGagGU-GUGGUUaaGACCUCAG- -5'
miRNA: 3'- -CGAGAGAGGUGUGGUUAAGACCUCAG- -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 | |||||||
| 9786 | 3' | -50.9 | NC_002588.1 | + | 3640 | 0.66 | 0.323288 |
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Target: 5'- aGCUCUCUCCcaACACCugccUCguaGGUCu -3' miRNA: 3'- -CGAGAGAGG--UGUGGuua-AGaccUCAG- -5' |
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| 9786 | 3' | -50.9 | NC_002588.1 | + | 3992 | 0.66 | 0.323288 |
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Target: 5'- -aUCUuCUCCACACU---UgaGGAGUCc -3' miRNA: 3'- cgAGA-GAGGUGUGGuuaAgaCCUCAG- -5' |
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| 9786 | 3' | -50.9 | NC_002588.1 | + | 834 | 0.72 | 0.106394 |
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Target: 5'- aCUCUCagCAuCACCAAg-CUGGAGUCu -3' miRNA: 3'- cGAGAGagGU-GUGGUUaaGACCUCAG- -5' |
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| 9786 | 3' | -50.9 | NC_002588.1 | + | 2611 | 1.12 | 0.000067 |
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Target: 5'- uGCUCUCUCCACACCAAUUCUGGAGUCu -3' miRNA: 3'- -CGAGAGAGGUGUGGUUAAGACCUCAG- -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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