miRNA: 3'- -UCGCUGCCAaAGguuAGUGCUU--UCUU- -5'
miRNA: 3'- -UCGCUGCCAaAGguuAGUGCUU--UCUU- -5'
miRNA: 3'- uCGCUGCCAaa----GGUU-----AGUGCUUUCUU- -5'
miRNA: 3'- -UCGCUGCCAAAGGUUAGUGCUUUCUU- -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 | |||||||
| 842 | 3' | -48.1 | NC_000898.1 | + | 7695 | 0.68 | 0.996022 |
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Target: 5'- gGGCGGCGGUgUC---UCACGGAcaGGAAg -3' miRNA: 3'- -UCGCUGCCAaAGguuAGUGCUU--UCUU- -5' |
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| 842 | 3' | -48.1 | NC_000898.1 | + | 160863 | 0.68 | 0.996022 |
|
Target: 5'- gGGCGGCGGUgUC---UCACGGAcaGGAAg -3' miRNA: 3'- -UCGCUGCCAaAGguuAGUGCUU--UCUU- -5' |
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| 842 | 3' | -48.1 | NC_000898.1 | + | 34704 | 0.69 | 0.993643 |
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Target: 5'- uGCGGCGGUaaacaaCCAAguguuUUACGGAGGAAu -3' miRNA: 3'- uCGCUGCCAaa----GGUU-----AGUGCUUUCUU- -5' |
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| 842 | 3' | -48.1 | NC_000898.1 | + | 89467 | 1.07 | 0.021838 |
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Target: 5'- gAGCGACGGUUUCCAAUCACGAAAGAAu -3' miRNA: 3'- -UCGCUGCCAAAGGUUAGUGCUUUCUU- -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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