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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 | |||||||
| 2062 | 5' | -51.6 | NC_001348.1 | + | 48689 | 0.66 | 0.985469 |
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Target: 5'- uCGAuCCGGUGGUC--GUAUUGGAUUu -3' miRNA: 3'- -GCUuGGCCACCGGguCAUAGCUUAAc -5' |
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| 2062 | 5' | -51.6 | NC_001348.1 | + | 123483 | 0.67 | 0.968451 |
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Target: 5'- uGGACgCGGUGGCCC----UCGAGa-- -3' miRNA: 3'- gCUUG-GCCACCGGGucauAGCUUaac -5' |
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| 2062 | 5' | -51.6 | NC_001348.1 | + | 106309 | 0.67 | 0.968451 |
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Target: 5'- uGGACgCGGUGGCCC----UCGAGa-- -3' miRNA: 3'- gCUUG-GCCACCGGGucauAGCUUaac -5' |
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| 2062 | 5' | -51.6 | NC_001348.1 | + | 75596 | 0.68 | 0.956791 |
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Target: 5'- aGAACCGGgagGGCguuuaaauugauauUCAGUGUCGGu--- -3' miRNA: 3'- gCUUGGCCa--CCG--------------GGUCAUAGCUuaac -5' |
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| 2062 | 5' | -51.6 | NC_001348.1 | + | 106309 | 0.7 | 0.90032 |
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Target: 5'- gCGGGCCGGUccaguucccGGCCCAGgcaUGAGUg- -3' miRNA: 3'- -GCUUGGCCA---------CCGGGUCauaGCUUAac -5' |
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| 2062 | 5' | -51.6 | NC_001348.1 | + | 123483 | 0.7 | 0.90032 |
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Target: 5'- gCGGGCCGGUccaguucccGGCCCAGgcaUGAGUg- -3' miRNA: 3'- -GCUUGGCCA---------CCGGGUCauaGCUUAac -5' |
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| 2062 | 5' | -51.6 | NC_001348.1 | + | 66852 | 1.1 | 0.005463 |
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Target: 5'- cCGAACCGGUGGCCCAGUAUCGAAUUGg -3' miRNA: 3'- -GCUUGGCCACCGGGUCAUAGCUUAAC- -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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