miRNA: 3'- aGGGCGUU------UCGGGGaauaCUGC-GCGC- -5'
miRNA: 3'- aGGGCGUUU-CGGGGAAu--ACUgCGCGc -5'
miRNA: 3'- aGGGCguuUCGGGGaauaCUGCGCGC- -5'
miRNA: 3'- -AGGGCGUUUCGGGGAAUACUGCGCGC- -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 | |||||||
| 13549 | 5' | -55.8 | NC_003444.1 | + | 27157 | 0.67 | 0.517247 |
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Target: 5'- gCCCGCGAgugugcAGCUCCg---GGCGuCGUGg -3' miRNA: 3'- aGGGCGUU------UCGGGGaauaCUGC-GCGC- -5' |
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| 13549 | 5' | -55.8 | NC_003444.1 | + | 30667 | 0.7 | 0.333733 |
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Target: 5'- aCCUGCAAAcGCCCCUUuguUGGgGUGUc -3' miRNA: 3'- aGGGCGUUU-CGGGGAAu--ACUgCGCGc -5' |
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| 13549 | 5' | -55.8 | NC_003444.1 | + | 14000 | 0.72 | 0.238362 |
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Target: 5'- aCCCGa--AGCCCCc---GGCGCGCGg -3' miRNA: 3'- aGGGCguuUCGGGGaauaCUGCGCGC- -5' |
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| 13549 | 5' | -55.8 | NC_003444.1 | + | 8063 | 1.1 | 0.000428 |
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Target: 5'- uUCCCGCAAAGCCCCUUAUGACGCGCGg -3' miRNA: 3'- -AGGGCGUUUCGGGGAAUACUGCGCGC- -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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