miRNA: 3'- gccACAACGuCCAgCUCGUGCGauag -5'
miRNA: 3'- -GCCACAACG---UCC-AGCUCGu--GCGAUAG- -5'
miRNA: 3'- gCCACAACGU-CCAGCu---CGUgCG-AUAG- -5'
miRNA: 3'- -GCCACAACGUCCAGCUCGUGCGAUAG- -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 | |||||||
| 20773 | 3' | -53.9 | NC_004689.1 | + | 46042 | 0.69 | 0.683611 |
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Target: 5'- --uUGUUGCcGGUgGAGCACGCa--- -3' miRNA: 3'- gccACAACGuCCAgCUCGUGCGauag -5' |
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| 20773 | 3' | -53.9 | NC_004689.1 | + | 10581 | 0.69 | 0.661789 |
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Target: 5'- gCGGUGUUGCagcGGGaUUGGGCugcUGCUGUUc -3' miRNA: 3'- -GCCACAACG---UCC-AGCUCGu--GCGAUAG- -5' |
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| 20773 | 3' | -53.9 | NC_004689.1 | + | 42469 | 0.71 | 0.541885 |
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Target: 5'- uGGUGUUGCAcGGUCGuaucGCA-GCaUGUCa -3' miRNA: 3'- gCCACAACGU-CCAGCu---CGUgCG-AUAG- -5' |
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| 20773 | 3' | -53.9 | NC_004689.1 | + | 18456 | 1.11 | 0.001235 |
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Target: 5'- aCGGUGUUGCAGGUCGAGCACGCUAUCg -3' miRNA: 3'- -GCCACAACGUCCAGCUCGUGCGAUAG- -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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