miRNA: 3'- auaGUCuGGGUU-UCGGAGUCG---------ACGUu -5'
miRNA: 3'- auaGUCUGGGuUUCGGAGUC-GACgUu -5'
miRNA: 3'- auaGUCUGG-GUUUCgGAGUCGACGuu -5'
miRNA: 3'- aUAGUCUGggUUUCGGa----GUCGACGuu -5'
miRNA: 3'- -AUAGUCUGGGUUUCGGAGUCGACGUU- -5'
Results 1 - 5 of 5 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 | |||||||
| 6216 | 5' | -53.8 | NC_001844.1 | + | 39311 | 0.66 | 0.924597 |
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Target: 5'- --aCGGcCCCAAuAGCCUCGGCaagugugucUGCAu -3' miRNA: 3'- auaGUCuGGGUU-UCGGAGUCG---------ACGUu -5' |
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| 6216 | 5' | -53.8 | NC_001844.1 | + | 115254 | 0.66 | 0.906232 |
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Target: 5'- --cCGGGCCC-GGGCCUCGGcCUGgAc -3' miRNA: 3'- auaGUCUGGGuUUCGGAGUC-GACgUu -5' |
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| 6216 | 5' | -53.8 | NC_001844.1 | + | 6992 | 0.67 | 0.878108 |
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Target: 5'- --aCAGAUCaCAGGGgUUCAGCUGCu- -3' miRNA: 3'- auaGUCUGG-GUUUCgGAGUCGACGuu -5' |
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| 6216 | 5' | -53.8 | NC_001844.1 | + | 9822 | 0.67 | 0.862561 |
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Target: 5'- aGUCAGACgaGGAGCUguuggCGGCUGCu- -3' miRNA: 3'- aUAGUCUGggUUUCGGa----GUCGACGuu -5' |
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| 6216 | 5' | -53.8 | NC_001844.1 | + | 77791 | 1.04 | 0.005905 |
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Target: 5'- cUAUCAGACCCAAAGCCUCAGCUGCAAu -3' miRNA: 3'- -AUAGUCUGGGUUUCGGAGUCGACGUU- -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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