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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 | |||||||
| 12451 | 5' | -53.8 | NC_003324.1 | + | 29827 | 1.1 | 0.001232 |
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Target: 5'- gGCGAUCAUCUGCAGGCGUGGAAGCUGc -3' miRNA: 3'- -CGCUAGUAGACGUCCGCACCUUCGAC- -5' |
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| 12451 | 5' | -53.8 | NC_003324.1 | + | 36740 | 0.67 | 0.747513 |
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Target: 5'- aGUGAcaUCAUCcgaUGCgAGGCccGUGGAGcGCUGg -3' miRNA: 3'- -CGCU--AGUAG---ACG-UCCG--CACCUU-CGAC- -5' |
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| 12451 | 5' | -53.8 | NC_003324.1 | + | 19179 | 0.66 | 0.798545 |
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Target: 5'- aGCGGUCcUCUGCGcGGCGcUGGgcGa-- -3' miRNA: 3'- -CGCUAGuAGACGU-CCGC-ACCuuCgac -5' |
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| 12451 | 5' | -53.8 | NC_003324.1 | + | 47510 | 0.67 | 0.726171 |
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Target: 5'- -aGAgCGUagugGCAGGCGUcGAAGCUGu -3' miRNA: 3'- cgCUaGUAga--CGUCCGCAcCUUCGAC- -5' |
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| 12451 | 5' | -53.8 | NC_003324.1 | + | 2344 | 0.67 | 0.704444 |
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Target: 5'- cGCGGUCG-CUGCGGGaGUGGuuGUc- -3' miRNA: 3'- -CGCUAGUaGACGUCCgCACCuuCGac -5' |
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| 12451 | 5' | -53.8 | NC_003324.1 | + | 54015 | 0.69 | 0.582149 |
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Target: 5'- gGCG-UCuuUCUGCAGGCG-GcGAAGCg- -3' miRNA: 3'- -CGCuAGu-AGACGUCCGCaC-CUUCGac -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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