miRNA: 3'- -CCG-GUUG-GUGUCGGUg-----UCCC--ACCGCu -5'
miRNA: 3'- cCGGUUGGUGUCGGUGUCCCacc----GCU- -5'
miRNA: 3'- -CCGGUUGGUGUCGGUGUCCCACCGCU- -5'
Results 1 - 3 of 3 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 | |||||||
| 33652 | 3' | -59 | NC_010624.1 | + | 5020 | 0.67 | 0.089039 |
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Target: 5'- uGGCuCGACaCACAGCCAaggcugAGGGacUGGUGc -3' miRNA: 3'- -CCG-GUUG-GUGUCGGUg-----UCCC--ACCGCu -5' |
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| 33652 | 3' | -59 | NC_010624.1 | + | 5314 | 0.67 | 0.07562 |
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Target: 5'- aGUUGGCCAUGGCCACAGGGgcagucaCGAg -3' miRNA: 3'- cCGGUUGGUGUCGGUGUCCCacc----GCU- -5' |
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| 33652 | 3' | -59 | NC_010624.1 | + | 5180 | 1.11 | 0.000013 |
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Target: 5'- aGGCCAACCACAGCCACAGGGUGGCGAa -3' miRNA: 3'- -CCGGUUGGUGUCGGUGUCCCACCGCU- -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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