miRNA: 3'- -GC-CAGUCCGa----CAUGACUua--AAggCAG- -5'
miRNA: 3'- -GCCAGUC-----CG-ACAUGACUUa-AAG-GCAg -5'
miRNA: 3'- -GCCaGUCCGacaUGACUUaaaGGCAG- -5'
miRNA: 3'- -GCCAGUcCGA-CAUGACUUAaaGGCAG- -5'
miRNA: 3'- -GCCAGUCCGACAUGACUUAAAGGCAG- -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 | |||||||
| 8429 | 3' | -50.1 | NC_002166.1 | + | 39283 | 0.66 | 0.903647 |
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Target: 5'- gCGcGUCAGGUuuaagGUGCUGAuggaUUuuGUCu -3' miRNA: 3'- -GC-CAGUCCGa----CAUGACUua--AAggCAG- -5' |
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| 8429 | 3' | -50.1 | NC_002166.1 | + | 34522 | 0.66 | 0.896331 |
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Target: 5'- gCGGUCAGaagcuGCaUGUGCUGGAagUUCaCGUg -3' miRNA: 3'- -GCCAGUC-----CG-ACAUGACUUa-AAG-GCAg -5' |
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| 8429 | 3' | -50.1 | NC_002166.1 | + | 11161 | 0.68 | 0.807863 |
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Target: 5'- gCGG-CGGGCgccACUGAAacgCCGUCa -3' miRNA: 3'- -GCCaGUCCGacaUGACUUaaaGGCAG- -5' |
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| 8429 | 3' | -50.1 | NC_002166.1 | + | 14659 | 0.71 | 0.640895 |
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Target: 5'- cCGGUCAcGCUgGUAUUGAGUa-CCGUCu -3' miRNA: 3'- -GCCAGUcCGA-CAUGACUUAaaGGCAG- -5' |
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| 8429 | 3' | -50.1 | NC_002166.1 | + | 16439 | 1.11 | 0.001778 |
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Target: 5'- cCGGUCAGGCUGUACUGAAUUUCCGUCu -3' miRNA: 3'- -GCCAGUCCGACAUGACUUAAAGGCAG- -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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