miRNA: 3'- -GCCGGUAGUAUUCGCUAGUAGCCAGG- -5'
miRNA: 3'- gCCGGuAgUAUUCGCuAGUAgCCAGG- -5'
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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 | |||||||
| 4092 | 5' | -51 | NC_001655.1 | + | 8075 | 1.13 | 0.00014 |
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Target: 5'- uCGGCCAUCAUAAGCGAUCAUCGGUCCu -3' miRNA: 3'- -GCCGGUAGUAUUCGCUAGUAGCCAGG- -5' |
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| 4092 | 5' | -51 | NC_001655.1 | + | 177 | 0.72 | 0.177463 |
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Target: 5'- uGGCCcUgAUGGGCGuUCAUgGGUUCg -3' miRNA: 3'- gCCGGuAgUAUUCGCuAGUAgCCAGG- -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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