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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 23381 | 3' | -56 | NC_005259.1 | + | 41896 | 0.67 | 0.673466 |
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Target: 5'- aCGCaUGCGGgaUGAGcgCGGgagcUCgAAGGUGACc -3' miRNA: 3'- -GCG-ACGCC--ACUCa-GCC----AG-UUCCACUG- -5' |
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| 23381 | 3' | -56 | NC_005259.1 | + | 61592 | 0.67 | 0.673466 |
|
Target: 5'- --aUGCGGUGGGcCGGU-GGGGUcGGCg -3' miRNA: 3'- gcgACGCCACUCaGCCAgUUCCA-CUG- -5' |
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| 23381 | 3' | -56 | NC_005259.1 | + | 58771 | 0.68 | 0.587333 |
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Target: 5'- aCGCUGCGGgcgcugUGcGcCGGUCGAggcGGUGAUu -3' miRNA: 3'- -GCGACGCC------ACuCaGCCAGUU---CCACUG- -5' |
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| 23381 | 3' | -56 | NC_005259.1 | + | 20063 | 0.68 | 0.604517 |
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Target: 5'- cCGCUGCGGUGgcGGUCGucaccacGUCGAaaccaccgacccguGGUGAg -3' miRNA: 3'- -GCGACGCCAC--UCAGC-------CAGUU--------------CCACUg -5' |
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| 23381 | 3' | -56 | NC_005259.1 | + | 51796 | 0.69 | 0.555387 |
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Target: 5'- gCGCU-CGGcGGGUCGGUCAgcucaggcAGGgcgGGCa -3' miRNA: 3'- -GCGAcGCCaCUCAGCCAGU--------UCCa--CUG- -5' |
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| 23381 | 3' | -56 | NC_005259.1 | + | 53019 | 0.72 | 0.380005 |
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Target: 5'- gCGCUGCGGUGGcGUCGaGgCAucGUGACc -3' miRNA: 3'- -GCGACGCCACU-CAGC-CaGUucCACUG- -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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