miRNA: 3'- gGGCAGACCUUUGGcGuuACUUGCUa -5'
miRNA: 3'- -GGGCAGa-CCUU---UGGCGuuACU--UGCUa -5'
miRNA: 3'- gGGCAGaCC--UUUGGCGU---UACUUGCUA- -5'
miRNA: 3'- -GGGCAGACCUUUGGCGUUACUUGCUA- -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 | |||||||
| 23094 | 5' | -50.4 | NC_005178.1 | + | 31153 | 0.67 | 0.841302 |
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Target: 5'- aUCGUCUGGAGGCUcC--UGGGCGAg -3' miRNA: 3'- gGGCAGACCUUUGGcGuuACUUGCUa -5' |
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| 23094 | 5' | -50.4 | NC_005178.1 | + | 13422 | 0.67 | 0.841302 |
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Target: 5'- gCCCGUCacGGAGcccGCCGCcuUGGucACGAc -3' miRNA: 3'- -GGGCAGa-CCUU---UGGCGuuACU--UGCUa -5' |
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| 23094 | 5' | -50.4 | NC_005178.1 | + | 35178 | 0.7 | 0.63467 |
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Target: 5'- aCUGUC-GGccAGGCCGCAgucGUGGACGAUg -3' miRNA: 3'- gGGCAGaCC--UUUGGCGU---UACUUGCUA- -5' |
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| 23094 | 5' | -50.4 | NC_005178.1 | + | 7668 | 1.09 | 0.002126 |
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Target: 5'- gCCCGUCUGGAAACCGCAAUGAACGAUg -3' miRNA: 3'- -GGGCAGACCUUUGGCGUUACUUGCUA- -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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