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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 31851 | 5' | -53.2 | NC_006938.1 | + | 31354 | 1.06 | 0.002781 |
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Target: 5'- gGUCCCGUCAGGUCCGUCUAGAAUCUAc -3' miRNA: 3'- -CAGGGCAGUCCAGGCAGAUCUUAGAU- -5' |
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| 31851 | 5' | -53.2 | NC_006938.1 | + | 694 | 0.67 | 0.787878 |
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Target: 5'- cUCUCG-CAGGagcCCGUCcGGAGUCUAu -3' miRNA: 3'- cAGGGCaGUCCa--GGCAGaUCUUAGAU- -5' |
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| 31851 | 5' | -53.2 | NC_006938.1 | + | 61177 | 0.66 | 0.852847 |
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Target: 5'- --aCCGUCAGGUCCGgccagGGAGacuUCUu -3' miRNA: 3'- cagGGCAGUCCAGGCaga--UCUU---AGAu -5' |
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| 31851 | 5' | -53.2 | NC_006938.1 | + | 21537 | 0.67 | 0.797743 |
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Target: 5'- -cCCCGcCgAGGUCCGUCUccAGcuGUCUGu -3' miRNA: 3'- caGGGCaG-UCCAGGCAGA--UCu-UAGAU- -5' |
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| 31851 | 5' | -53.2 | NC_006938.1 | + | 53364 | 0.67 | 0.787878 |
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Target: 5'- uGUCCaCGUCGuGGUCCGUgaAGAAg--- -3' miRNA: 3'- -CAGG-GCAGU-CCAGGCAgaUCUUagau -5' |
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| 31851 | 5' | -53.2 | NC_006938.1 | + | 2998 | 0.8 | 0.179817 |
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Target: 5'- gGUCCCGUCAGGUCCGcUCggacuucGAGUCa- -3' miRNA: 3'- -CAGGGCAGUCCAGGC-AGau-----CUUAGau -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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