miRNA: 3'- gCGUuu--ACU----------UCCACggCGGCUCUAGg -5'
miRNA: 3'- gCGUUUACU--UCC---------ACG-GCGGCUCU--AGG- -5'
miRNA: 3'- -GCGUUUACUUCCACGgcGGcUCUAgg -5'
miRNA: 3'- -GCGUUUACUUCCACGGCGGCUCUAGG- -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 | |||||||
| 17776 | 5' | -52.4 | NC_004629.1 | + | 132580 | 0.66 | 0.998135 |
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Target: 5'- aGCAuucuUGGaauucauuaaAGGUGaaGCCGAGAUUa -3' miRNA: 3'- gCGUuu--ACU----------UCCACggCGGCUCUAGg -5' |
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| 17776 | 5' | -52.4 | NC_004629.1 | + | 167511 | 0.69 | 0.978617 |
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Target: 5'- gGCAAAUGGcgAGGcaauuaauaUGCuCGCUGAGAuaUCCc -3' miRNA: 3'- gCGUUUACU--UCC---------ACG-GCGGCUCU--AGG- -5' |
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| 17776 | 5' | -52.4 | NC_004629.1 | + | 195826 | 0.69 | 0.973771 |
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Target: 5'- uCGCAGAUGAAGGUGCa-CC-AGGUa- -3' miRNA: 3'- -GCGUUUACUUCCACGgcGGcUCUAgg -5' |
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| 17776 | 5' | -52.4 | NC_004629.1 | + | 262962 | 1.12 | 0.008245 |
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Target: 5'- cCGCAAAUGAAGGUGCCGCCGAGAUCCc -3' miRNA: 3'- -GCGUUUACUUCCACGGCGGCUCUAGG- -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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