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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 | |||||||
| 23842 | 5' | -58.3 | NC_005261.1 | + | 23813 | 0.66 | 0.738313 |
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Target: 5'- uGGGGCGGGcUUGCCCCGGgcgggCCg--- -3' miRNA: 3'- uUCUCGUCCaGAUGGGGCCa----GGacag -5' |
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| 23842 | 5' | -58.3 | NC_005261.1 | + | 23870 | 0.66 | 0.738313 |
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Target: 5'- uGGGGCGGGcUUGCCCCGGgcgggCCg--- -3' miRNA: 3'- uUCUCGUCCaGAUGGGGCCa----GGacag -5' |
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| 23842 | 5' | -58.3 | NC_005261.1 | + | 97347 | 0.67 | 0.688292 |
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Target: 5'- cAGAGCcaaugaccgugGGGUCUACggCCCGGgCgUGUCg -3' miRNA: 3'- uUCUCG-----------UCCAGAUG--GGGCCaGgACAG- -5' |
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| 23842 | 5' | -58.3 | NC_005261.1 | + | 23755 | 0.68 | 0.66789 |
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Target: 5'- gAGGGGCGGGcUUGCCCCGGgcgggCCg--- -3' miRNA: 3'- -UUCUCGUCCaGAUGGGGCCa----GGacag -5' |
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| 23842 | 5' | -58.3 | NC_005261.1 | + | 72876 | 0.68 | 0.657641 |
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Target: 5'- -cGGGCAGGUCcGCCCCGccgCCgggGUa -3' miRNA: 3'- uuCUCGUCCAGaUGGGGCca-GGa--CAg -5' |
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| 23842 | 5' | -58.3 | NC_005261.1 | + | 46774 | 0.69 | 0.595999 |
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Target: 5'- cAGGAGCgAGGgCUugaGCCCCGGgcgCCcGUCg -3' miRNA: 3'- -UUCUCG-UCCaGA---UGGGGCCa--GGaCAG- -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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