miRNA: 3'- aGUUgAUG-GACACC---AGGUAGUCgAgG- -5'
miRNA: 3'- aGUUGA------UGGa-CACCa--GGUAGUCGAGG- -5'
miRNA: 3'- aGUUgAUGgACA--CCAGGUAGUCG--AGG- -5'
miRNA: 3'- -AGUUGAUGGACACCAGGUAGUCGAGG- -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 | |||||||
| 22743 | 3' | -51.6 | NC_005092.1 | + | 8656 | 0.68 | 0.304802 |
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Target: 5'- cCAAgUGCuCUGUGGuucUCCAUCAGgUgCu -3' miRNA: 3'- aGUUgAUG-GACACC---AGGUAGUCgAgG- -5' |
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| 22743 | 3' | -51.6 | NC_005092.1 | + | 3056 | 0.69 | 0.25505 |
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Target: 5'- cCAGCUggcaaaACCagGUGGaaaUUAUCAGCUCCg -3' miRNA: 3'- aGUUGA------UGGa-CACCa--GGUAGUCGAGG- -5' |
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| 22743 | 3' | -51.6 | NC_005092.1 | + | 1514 | 0.69 | 0.232775 |
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Target: 5'- cCGGgUAUgUGUgcGGUCCGUCAGUuaUCCa -3' miRNA: 3'- aGUUgAUGgACA--CCAGGUAGUCG--AGG- -5' |
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| 22743 | 3' | -51.6 | NC_005092.1 | + | 1993 | 1.14 | 7.6e-05 |
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Target: 5'- aUCAACUACCUGUGGUCCAUCAGCUCCa -3' miRNA: 3'- -AGUUGAUGGACACCAGGUAGUCGAGG- -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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