miRNA: 3'- -UCGAU--CGUaCUa-CCGGU-------GUUCCUGUC- -5'
miRNA: 3'- -UCGau----CGUaCUAC-CGGUGUUCCUGUC- -5'
miRNA: 3'- -UCGAUCgUACUACCGGugUucCUGUC- -5'
miRNA: 3'- -UCGAUCgUACUACCGGUGUUCCUGUC- -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 | |||||||
| 15498 | 3' | -52.9 | NC_003992.2 | + | 6500 | 0.66 | 0.256849 |
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Target: 5'- cGGCUAuuGCG-GAggGGCCGuccuggcCAAGGACGGa -3' miRNA: 3'- -UCGAU--CGUaCUa-CCGGU-------GUUCCUGUC- -5' |
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| 15498 | 3' | -52.9 | NC_003992.2 | + | 83 | 0.69 | 0.144796 |
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Target: 5'- uGGCguaaguGCGaGGUGaGUCGCAGGGACGGu -3' miRNA: 3'- -UCGau----CGUaCUAC-CGGUGUUCCUGUC- -5' |
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| 15498 | 3' | -52.9 | NC_003992.2 | + | 7767 | 0.77 | 0.037985 |
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Target: 5'- cAGCUGGgGUGAUGGUCugAccGACAGa -3' miRNA: 3'- -UCGAUCgUACUACCGGugUucCUGUC- -5' |
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| 15498 | 3' | -52.9 | NC_003992.2 | + | 4218 | 0.97 | 0.00084 |
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Target: 5'- cAGCUAG-AUGAUGGCCACAAGGACAGg -3' miRNA: 3'- -UCGAUCgUACUACCGGUGUUCCUGUC- -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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