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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 | |||||||
| 17487 | 5' | -56.4 | NC_004456.1 | + | 35786 | 0.66 | 0.629153 |
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Target: 5'- -aGCCGCCAagGCUGguaUCGaUGCcGGUUGa -3' miRNA: 3'- ggCGGCGGU--UGAC---AGCaGCG-CCAACg -5' |
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| 17487 | 5' | -56.4 | NC_004456.1 | + | 19473 | 0.66 | 0.629153 |
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Target: 5'- gCGCCaGCUGACUcgGUUGUaauaGCGGcgGCg -3' miRNA: 3'- gGCGG-CGGUUGA--CAGCAg---CGCCaaCG- -5' |
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| 17487 | 5' | -56.4 | NC_004456.1 | + | 17767 | 0.69 | 0.459822 |
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Target: 5'- uCCGCCGUCAGCUGcUCGaaguaauccaccUCGaacucGUUGCu -3' miRNA: 3'- -GGCGGCGGUUGAC-AGC------------AGCgc---CAACG- -5' |
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| 17487 | 5' | -56.4 | NC_004456.1 | + | 21124 | 0.7 | 0.402528 |
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Target: 5'- aCUGCUGCCGagaagaaaGCgGUCGgcguaGUGGUUGCc -3' miRNA: 3'- -GGCGGCGGU--------UGaCAGCag---CGCCAACG- -5' |
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| 17487 | 5' | -56.4 | NC_004456.1 | + | 28251 | 1.04 | 0.001638 |
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Target: 5'- gCCGCCGCCAACUGUCGUCGCGGU-GCc -3' miRNA: 3'- -GGCGGCGGUUGACAGCAGCGCCAaCG- -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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