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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 | |||||||
| 4335 | 3' | -53.4 | NC_001720.1 | + | 8285 | 0.71 | 0.413901 |
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Target: 5'- cCGUGGGGCaugggguggGUGAGGGC-GGAAGCGUAc -3' miRNA: 3'- -GCAUCCCG---------CGUUCUCGgUCUUUGCAU- -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 13593 | 0.67 | 0.630873 |
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Target: 5'- --gGGGGUGCAGGAGagcauCCAGGcgcuggucaacGACGUGa -3' miRNA: 3'- gcaUCCCGCGUUCUC-----GGUCU-----------UUGCAU- -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 28233 | 0.67 | 0.64234 |
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Target: 5'- aCGggagGGGGCGgAGGAGgaGGAGGCGg- -3' miRNA: 3'- -GCa---UCCCGCgUUCUCggUCUUUGCau -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 11138 | 0.67 | 0.653797 |
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Target: 5'- -cUAGGGCGCA--GGCCGGu-GCGg- -3' miRNA: 3'- gcAUCCCGCGUucUCGGUCuuUGCau -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 5844 | 0.67 | 0.676633 |
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Target: 5'- --aAGGGCGUgaAAGAGgaCAGAGACGc- -3' miRNA: 3'- gcaUCCCGCG--UUCUCg-GUCUUUGCau -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 13386 | 1.07 | 0.001343 |
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Target: 5'- cCGUAGGGCGCAAGAGCCAGAAACGUAu -3' miRNA: 3'- -GCAUCCCGCGUUCUCGGUCUUUGCAU- -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 21760 | 0.67 | 0.630873 |
|
Target: 5'- gGUAGGGCGuUAAGGGCCGuuucuCGUc -3' miRNA: 3'- gCAUCCCGC-GUUCUCGGUcuuu-GCAu -5' |
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| 4335 | 3' | -53.4 | NC_001720.1 | + | 31775 | 0.67 | 0.64234 |
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Target: 5'- cCGUaacgGGGGCGCGGGcAGCgGGAcAgGUAu -3' miRNA: 3'- -GCA----UCCCGCGUUC-UCGgUCUuUgCAU- -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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