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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 | |||||||
| 21778 | 5' | -55.9 | NC_004813.1 | + | 45623 | 1.11 | 0.000752 |
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Target: 5'- cCGGGGGAAUACACCCUGACGGUCAGGg -3' miRNA: 3'- -GCCCCCUUAUGUGGGACUGCCAGUCC- -5' |
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| 21778 | 5' | -55.9 | NC_004813.1 | + | 36794 | 0.68 | 0.585315 |
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Target: 5'- aCGGGGGAAcgccgccuuauaaacACGCCUggaagaagGAUGGUCAGc -3' miRNA: 3'- -GCCCCCUUa--------------UGUGGGa-------CUGCCAGUCc -5' |
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| 21778 | 5' | -55.9 | NC_004813.1 | + | 46922 | 0.68 | 0.594954 |
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Target: 5'- gCGGGGucAUGuCACCCUGACGuuuaaugugucGUCGGc -3' miRNA: 3'- -GCCCCcuUAU-GUGGGACUGC-----------CAGUCc -5' |
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| 21778 | 5' | -55.9 | NC_004813.1 | + | 29700 | 0.67 | 0.691629 |
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Target: 5'- aCGGGGGAaaAUugACCCgcUGAUGG-CGc- -3' miRNA: 3'- -GCCCCCU--UAugUGGG--ACUGCCaGUcc -5' |
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| 21778 | 5' | -55.9 | NC_004813.1 | + | 48698 | 0.66 | 0.70223 |
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Target: 5'- gCGGGGaGAGacCGgUCUGACGGgaaaugCAGGu -3' miRNA: 3'- -GCCCC-CUUauGUgGGACUGCCa-----GUCC- -5' |
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| 21778 | 5' | -55.9 | NC_004813.1 | + | 46813 | 0.67 | 0.648781 |
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Target: 5'- cCGGGGGAAUGaugaUCUGcCGGUCGa- -3' miRNA: 3'- -GCCCCCUUAUgug-GGACuGCCAGUcc -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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