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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 | |||||||
| 13011 | 3' | -56.6 | NC_003390.1 | + | 6856 | 0.66 | 0.576488 |
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Target: 5'- cAUCuGUagcCUUGCCUgcACgGGCCCUg -3' miRNA: 3'- -UAGuCAgu-GAACGGGauUGgCCGGGA- -5' |
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| 13011 | 3' | -56.6 | NC_003390.1 | + | 32021 | 0.66 | 0.554407 |
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Target: 5'- cUCAGUCACUgGCCCUugcgcuuucguAGCUcaggGGCCa- -3' miRNA: 3'- uAGUCAGUGAaCGGGA-----------UUGG----CCGGga -5' |
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| 13011 | 3' | -56.6 | NC_003390.1 | + | 26002 | 0.66 | 0.554407 |
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Target: 5'- uUCuaUCGCUgcUGCCCcugUGACCGGCCa- -3' miRNA: 3'- uAGucAGUGA--ACGGG---AUUGGCCGGga -5' |
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| 13011 | 3' | -56.6 | NC_003390.1 | + | 1509 | 0.68 | 0.445953 |
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Target: 5'- -cUAGUCACUucgcugacgcugguUGUCCguacuuagcAGCCGGCCCg -3' miRNA: 3'- uaGUCAGUGA--------------ACGGGa--------UUGGCCGGGa -5' |
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| 13011 | 3' | -56.6 | NC_003390.1 | + | 3836 | 1.05 | 0.000958 |
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Target: 5'- cAUCAGUCACUUGCCCUAACCGGCCCUu -3' miRNA: 3'- -UAGUCAGUGAACGGGAUUGGCCGGGA- -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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