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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2204 | 3' | -61.8 | NC_001402.1 | + | 1044 | 1.11 | 0.000001 |
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Target: 5'- aUGUGGAGCGGCUUCUCCGCCGCCGCCa -3' miRNA: 3'- -ACACCUCGCCGAAGAGGCGGCGGCGG- -5' |
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| 2204 | 3' | -61.8 | NC_001402.1 | + | 1123 | 0.73 | 0.004173 |
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Target: 5'- --gGGAGgGGgg-CcCCGCCGCCGCCu -3' miRNA: 3'- acaCCUCgCCgaaGaGGCGGCGGCGG- -5' |
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| 2204 | 3' | -61.8 | NC_001402.1 | + | 1348 | 0.66 | 0.018766 |
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Target: 5'- cGUGG-GCGGCgcgUCgaccCCcagcagagccgcgggGCCGgCGCCg -3' miRNA: 3'- aCACCuCGCCGa--AGa---GG---------------CGGCgGCGG- -5' |
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| 2204 | 3' | -61.8 | NC_001402.1 | + | 698 | 0.67 | 0.013846 |
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Target: 5'- ---uGAGCGGCaUCgcggCgGCUGCUGCCu -3' miRNA: 3'- acacCUCGCCGaAGa---GgCGGCGGCGG- -5' |
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| 2204 | 3' | -61.8 | NC_001402.1 | + | 832 | 0.69 | 0.010359 |
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Target: 5'- --cGGGGCuggaGGCUgcagcucgcugCUCCGCugcugCGCCGCCa -3' miRNA: 3'- acaCCUCG----CCGAa----------GAGGCG-----GCGGCGG- -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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