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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 | |||||||
| 19578 | 3' | -52.5 | NC_004686.1 | + | 22727 | 0.66 | 0.82775 |
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Target: 5'- -cUCAGCUcACCCGC-CUaacCCCCGg -3' miRNA: 3'- gaAGUCGAuUGGGUGaGAacuGGGGU- -5' |
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| 19578 | 3' | -52.5 | NC_004686.1 | + | 53401 | 0.66 | 0.818324 |
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Target: 5'- ---gAGCUGGCCCGUUCgcgUGGCCgCAu -3' miRNA: 3'- gaagUCGAUUGGGUGAGa--ACUGGgGU- -5' |
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| 19578 | 3' | -52.5 | NC_004686.1 | + | 26674 | 0.67 | 0.778668 |
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Target: 5'- -aUCAGUU-GCgCAUUCagUGGCCCCAg -3' miRNA: 3'- gaAGUCGAuUGgGUGAGa-ACUGGGGU- -5' |
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| 19578 | 3' | -52.5 | NC_004686.1 | + | 21147 | 0.69 | 0.692456 |
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Target: 5'- --gCAGuCUgaGACCCACUCgaacGAUCCCAc -3' miRNA: 3'- gaaGUC-GA--UUGGGUGAGaa--CUGGGGU- -5' |
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| 19578 | 3' | -52.5 | NC_004686.1 | + | 7737 | 0.7 | 0.602251 |
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Target: 5'- uUUCGGCgc-CCCGCUUggGACUCCu -3' miRNA: 3'- gAAGUCGauuGGGUGAGaaCUGGGGu -5' |
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| 19578 | 3' | -52.5 | NC_004686.1 | + | 13795 | 1.09 | 0.001682 |
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Target: 5'- aCUUCAGCUAACCCACUCUUGACCCCAc -3' miRNA: 3'- -GAAGUCGAUUGGGUGAGAACUGGGGU- -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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