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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 | |||||||
| 20910 | 5' | -52 | NC_004689.1 | + | 52441 | 0.66 | 0.935926 |
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Target: 5'- cCGGCGCUGGacuaGCCUGCG-CG-GGUGc -3' miRNA: 3'- -GCUGUGACCag--UGGAUGCuGUgCUAC- -5' |
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| 20910 | 5' | -52 | NC_004689.1 | + | 40204 | 0.66 | 0.927172 |
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Target: 5'- uCGGCGCUGGcagccccgcgcuugaUCGCCUcCGAaguCGCGAg- -3' miRNA: 3'- -GCUGUGACC---------------AGUGGAuGCU---GUGCUac -5' |
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| 20910 | 5' | -52 | NC_004689.1 | + | 1872 | 0.67 | 0.899482 |
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Target: 5'- gGGCAgcUUGGUCGCCUugcccuUGGCGCGcUGa -3' miRNA: 3'- gCUGU--GACCAGUGGAu-----GCUGUGCuAC- -5' |
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| 20910 | 5' | -52 | NC_004689.1 | + | 37308 | 0.7 | 0.738908 |
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Target: 5'- aCGGC-CUGGUCagcgGCCUuuuuCGGCGCGGUc -3' miRNA: 3'- -GCUGuGACCAG----UGGAu---GCUGUGCUAc -5' |
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| 20910 | 5' | -52 | NC_004689.1 | + | 5623 | 0.81 | 0.223263 |
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Target: 5'- uCGGCACUGGUCACauccacGCGAC-CGAUGg -3' miRNA: 3'- -GCUGUGACCAGUGga----UGCUGuGCUAC- -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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