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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 | |||||||
| 22860 | 5' | -48.8 | NC_005137.2 | + | 37495 | 0.67 | 0.996197 |
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Target: 5'- aCGCGUGcAUUUGcgccgUCGGCUAcGACAa -3' miRNA: 3'- -GCGCAU-UAAGCua---AGCCGGUaCUGUa -5' |
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| 22860 | 5' | -48.8 | NC_005137.2 | + | 104530 | 0.67 | 0.992907 |
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Target: 5'- aGCGgcccauucAUUCGAUgcaaagCGGCCAaguUGACAa -3' miRNA: 3'- gCGCau------UAAGCUAa-----GCCGGU---ACUGUa -5' |
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| 22860 | 5' | -48.8 | NC_005137.2 | + | 125762 | 0.69 | 0.974742 |
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Target: 5'- gCGCGU--UUCGAg-CGGCgCGUGGCAa -3' miRNA: 3'- -GCGCAuuAAGCUaaGCCG-GUACUGUa -5' |
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| 22860 | 5' | -48.8 | NC_005137.2 | + | 22641 | 0.7 | 0.965453 |
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Target: 5'- aCGgGUAcccaCGAaccgUCGGCCAUGGCAa -3' miRNA: 3'- -GCgCAUuaa-GCUa---AGCCGGUACUGUa -5' |
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| 22860 | 5' | -48.8 | NC_005137.2 | + | 119052 | 1.07 | 0.016515 |
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Target: 5'- aCGCGUAAUUCGAUUCGGCCAUGACAUc -3' miRNA: 3'- -GCGCAUUAAGCUAAGCCGGUACUGUA- -5' |
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| 22860 | 5' | -48.8 | NC_005137.2 | + | 1521 | 0.68 | 0.991803 |
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Target: 5'- aCGCGUuGUUCaAUUCGGCCAUu---- -3' miRNA: 3'- -GCGCAuUAAGcUAAGCCGGUAcugua -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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