miRNA: 3'- aaaUGUCCGUUU--------UCGUUA----C-CCACUGU- -5'
miRNA: 3'- aaaUGUCCg---UU-UUCGUUACCCACUgu -5'
miRNA: 3'- aaaUGUCCGuUUUCGuu--ACCCACUgu -5'
miRNA: 3'- -AAAUGUCCGUUUUCGUUACCCACUGU- -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 | |||||||
| 8450 | 5' | -47.5 | NC_002167.1 | + | 7947 | 0.66 | 0.93953 |
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Target: 5'- --gACAGGCAAAgcccgguuGGCGAUauucGcGGUGAUAu -3' miRNA: 3'- aaaUGUCCGUUU--------UCGUUA----C-CCACUGU- -5' |
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| 8450 | 5' | -47.5 | NC_002167.1 | + | 11061 | 0.68 | 0.857069 |
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Target: 5'- --gACGGGaugaAGcAGGCAAUGGGUGGg- -3' miRNA: 3'- aaaUGUCCg---UU-UUCGUUACCCACUgu -5' |
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| 8450 | 5' | -47.5 | NC_002167.1 | + | 16791 | 0.71 | 0.704984 |
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Target: 5'- --cACAGGCcGAAGCuguuUGGGUGGu- -3' miRNA: 3'- aaaUGUCCGuUUUCGuu--ACCCACUgu -5' |
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| 8450 | 5' | -47.5 | NC_002167.1 | + | 2699 | 1.08 | 0.003844 |
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Target: 5'- aUUUACAGGCAAAAGCAAUGGGUGACAg -3' miRNA: 3'- -AAAUGUCCGUUUUCGUUACCCACUGU- -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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