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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 | |||||||
| 2353 | 5' | -51.2 | NC_001416.1 | + | 18170 | 0.66 | 0.904693 |
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Target: 5'- cCCGCgacauaaUGUUUGCCGUCuuuGGUcUGCu -3' miRNA: 3'- -GGUGag-----ACAAGCGGCAGuu-UCAcGCG- -5' |
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| 2353 | 5' | -51.2 | NC_001416.1 | + | 13896 | 0.67 | 0.849665 |
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Target: 5'- gCGCUCaGUUCGCUGcacugcUCAA--UGCGCc -3' miRNA: 3'- gGUGAGaCAAGCGGC------AGUUucACGCG- -5' |
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| 2353 | 5' | -51.2 | NC_001416.1 | + | 20584 | 0.68 | 0.782921 |
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Target: 5'- gCCGCcgCUGUUuuugcgucUGCCGcgCAGAG-GCGCu -3' miRNA: 3'- -GGUGa-GACAA--------GCGGCa-GUUUCaCGCG- -5' |
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| 2353 | 5' | -51.2 | NC_001416.1 | + | 32164 | 0.68 | 0.782921 |
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Target: 5'- gCCGCUCUGUucccagauauuUCGCCG-CGAcauucGUGCa- -3' miRNA: 3'- -GGUGAGACA-----------AGCGGCaGUUu----CACGcg -5' |
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| 2353 | 5' | -51.2 | NC_001416.1 | + | 17368 | 1.14 | 0.001244 |
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Target: 5'- gCCACUCUGUUCGCCGUCAAAGUGCGCc -3' miRNA: 3'- -GGUGAGACAAGCGGCAGUUUCACGCG- -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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