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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 | |||||||
| 8909 | 3' | -51.3 | NC_002484.1 | + | 31081 | 0.66 | 0.920402 |
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Target: 5'- aGGAUGaUCCGUUuGGCcCGCUGaGCAc- -3' miRNA: 3'- -CCUAC-AGGUAGcUUGaGCGAC-CGUuc -5' |
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| 8909 | 3' | -51.3 | NC_002484.1 | + | 50076 | 0.66 | 0.90748 |
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Target: 5'- ---cGUCCAUUGAuuuccuccaaguAUUC-CUGGCAAGa -3' miRNA: 3'- ccuaCAGGUAGCU------------UGAGcGACCGUUC- -5' |
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| 8909 | 3' | -51.3 | NC_002484.1 | + | 49060 | 0.66 | 0.893418 |
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Target: 5'- cGAUGUCCG-CGucuuGCUCGaUGGCGc- -3' miRNA: 3'- cCUACAGGUaGCu---UGAGCgACCGUuc -5' |
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| 8909 | 3' | -51.3 | NC_002484.1 | + | 10420 | 0.67 | 0.875879 |
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Target: 5'- cGAUGUCCugaucgaucuggucGUCGGACUCggacaGUUGGUAGa -3' miRNA: 3'- cCUACAGG--------------UAGCUUGAG-----CGACCGUUc -5' |
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| 8909 | 3' | -51.3 | NC_002484.1 | + | 41758 | 0.68 | 0.826598 |
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Target: 5'- ---aGUUCGUCGAcgaccGCgCGCUGGCGAu -3' miRNA: 3'- ccuaCAGGUAGCU-----UGaGCGACCGUUc -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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