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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 | |||||||
| 29354 | 3' | -52.4 | NC_006150.1 | + | 107432 | 0.66 | 0.994139 |
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Target: 5'- -----gUGGUCACCCUuggcgucggaGGAGUGAUc- -3' miRNA: 3'- aguaagACCAGUGGGA----------CCUCGCUAug -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 118490 | 0.66 | 0.993246 |
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Target: 5'- gUCAUgagagUUUGGaUCACCU--GAGCGGUGCu -3' miRNA: 3'- -AGUA-----AGACC-AGUGGGacCUCGCUAUG- -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 26497 | 0.67 | 0.987027 |
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Target: 5'- gUCGUUUUcGGUCGCCCau-GGCGGUAg -3' miRNA: 3'- -AGUAAGA-CCAGUGGGaccUCGCUAUg -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 130411 | 0.68 | 0.965863 |
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Target: 5'- ---aUCUGGUCGCCCgUGGcAGCc-UGCg -3' miRNA: 3'- aguaAGACCAGUGGG-ACC-UCGcuAUG- -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 211977 | 0.71 | 0.890655 |
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Target: 5'- uUCAggcCUGGUUACUCauuuccaucgcuaUGGAGCGAUAUu -3' miRNA: 3'- -AGUaa-GACCAGUGGG-------------ACCUCGCUAUG- -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 107680 | 0.72 | 0.854794 |
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Target: 5'- gUCGUUgUGGUCGgCCgcugggGGAGCGAcgGCc -3' miRNA: 3'- -AGUAAgACCAGUgGGa-----CCUCGCUa-UG- -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 29068 | 0.74 | 0.786152 |
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Target: 5'- aCAcgUCUGGUUuuggagaCUGGAGCGAUGCa -3' miRNA: 3'- aGUa-AGACCAGugg----GACCUCGCUAUG- -5' |
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| 29354 | 3' | -52.4 | NC_006150.1 | + | 209780 | 1.11 | 0.006373 |
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Target: 5'- cUCAUUCUGGUCACCCUGGAGCGAUACg -3' miRNA: 3'- -AGUAAGACCAGUGGGACCUCGCUAUG- -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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