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miRNA: 3'- gGGCUa---GAGU------------UC---UCGAGCGgCGCUCG- -5'
miRNA: 3'- gGGCuaGAGUU-CUCGa--GCGGCGCUCg -5'
miRNA: 3'- ggGCUAGAgu---UCUCGAGCgGCGCUCG- -5'
miRNA: 3'- -GGGCUAGAGUUCUCGAGCGGCGCUCG- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 32576 | 3' | -55.9 | NC_007151.1 | + | 105954 | 0.66 | 0.922098 |
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Target: 5'- uUCGAggcaCUCGuuguaguguuggAGcauGGCUCGCgGCGAGCu -3' miRNA: 3'- gGGCUa---GAGU------------UC---UCGAGCGgCGCUCG- -5' |
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| 32576 | 3' | -55.9 | NC_007151.1 | + | 91715 | 0.68 | 0.823628 |
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Target: 5'- aCCG--CUCGAuGAGCgucUGCCGCGAGg -3' miRNA: 3'- gGGCuaGAGUU-CUCGa--GCGGCGCUCg -5' |
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| 32576 | 3' | -55.9 | NC_007151.1 | + | 56187 | 0.71 | 0.692608 |
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Target: 5'- -aCGGUCUauuguAGGGUUUGgCGCGAGCg -3' miRNA: 3'- ggGCUAGAgu---UCUCGAGCgGCGCUCG- -5' |
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| 32576 | 3' | -55.9 | NC_007151.1 | + | 106160 | 1.12 | 0.002023 |
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Target: 5'- uCCCGAUCUCAAGAGCUCGCCGCGAGCc -3' miRNA: 3'- -GGGCUAGAGUUCUCGAGCGGCGCUCG- -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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