miRNA: 3'- gGGGUCGUUA--GCGUGGUCUgCGUGGa -5'
miRNA: 3'- gGGGUCGUUAgCG----UGG--UCUGCGUGGa -5'
miRNA: 3'- -GGGGUCGUuagCGUGGU--CuGCGUGGa -5'
miRNA: 3'- -GGGGUCGUUAGCgUgGUCUGCgUGGa -5'
miRNA: 3'- -GGGGUCGUUAGCGUGGUCUGCGUGGA- -5'
Results 1 - 5 of 5 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 | |||||||
| 8763 | 3' | -56.8 | NC_002371.2 | + | 26896 | 0.66 | 0.573436 |
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Target: 5'- uUCCGGCAAUucCGUAUCGGAgGUGCUg -3' miRNA: 3'- gGGGUCGUUA--GCGUGGUCUgCGUGGa -5' |
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| 8763 | 3' | -56.8 | NC_002371.2 | + | 3512 | 0.66 | 0.540717 |
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Target: 5'- aCCCGGCAAUgGUucagGCUcaGGGCGUACUc -3' miRNA: 3'- gGGGUCGUUAgCG----UGG--UCUGCGUGGa -5' |
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| 8763 | 3' | -56.8 | NC_002371.2 | + | 10953 | 0.69 | 0.354661 |
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Target: 5'- gUCCCGGCAa--GCGCCAuuGcCGCACCc -3' miRNA: 3'- -GGGGUCGUuagCGUGGU--CuGCGUGGa -5' |
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| 8763 | 3' | -56.8 | NC_002371.2 | + | 40097 | 0.69 | 0.354661 |
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Target: 5'- uCCCCAGCGAUUG-AgCAGGCG-GCCa -3' miRNA: 3'- -GGGGUCGUUAGCgUgGUCUGCgUGGa -5' |
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| 8763 | 3' | -56.8 | NC_002371.2 | + | 10004 | 1.09 | 0.000515 |
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Target: 5'- gCCCCAGCAAUCGCACCAGACGCACCUc -3' miRNA: 3'- -GGGGUCGUUAGCGUGGUCUGCGUGGA- -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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