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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 | |||||||
| 20865 | 5' | -53.2 | NC_004689.1 | + | 42064 | 0.66 | 0.887027 |
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Target: 5'- uUCUGUGU-GAguuugguuuuaagUCUGGAaaCGACggUGGCc -3' miRNA: 3'- -AGGCACAgCU-------------AGACCU--GCUGuuGCCG- -5' |
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| 20865 | 5' | -53.2 | NC_004689.1 | + | 32127 | 0.66 | 0.880411 |
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Target: 5'- gCCGUGuacguuUCGAgcagaugcuUCgGGACGGCGAaGGCu -3' miRNA: 3'- aGGCAC------AGCU---------AGaCCUGCUGUUgCCG- -5' |
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| 20865 | 5' | -53.2 | NC_004689.1 | + | 60917 | 0.67 | 0.848653 |
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Target: 5'- -gCGUGUCGAUCUGuccccaGCGcCAugaguucgccACGGCg -3' miRNA: 3'- agGCACAGCUAGACc-----UGCuGU----------UGCCG- -5' |
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| 20865 | 5' | -53.2 | NC_004689.1 | + | 46633 | 0.68 | 0.804104 |
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Target: 5'- aUCCac-UCGAUCuuguUGGACGGCAGuucCGGCu -3' miRNA: 3'- -AGGcacAGCUAG----ACCUGCUGUU---GCCG- -5' |
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| 20865 | 5' | -53.2 | NC_004689.1 | + | 9519 | 0.69 | 0.774229 |
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Target: 5'- -gCGUGUCGAaugaggUCUGGucaucguGgGGCAAUGGCc -3' miRNA: 3'- agGCACAGCU------AGACC-------UgCUGUUGCCG- -5' |
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| 20865 | 5' | -53.2 | NC_004689.1 | + | 51748 | 0.75 | 0.432195 |
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Target: 5'- gUUCGUcUCGAUCUGGuCGGCuuCGGUg -3' miRNA: 3'- -AGGCAcAGCUAGACCuGCUGuuGCCG- -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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