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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 12132 | 5' | -57.5 | NC_003309.1 | + | 26178 | 0.66 | 0.590042 |
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Target: 5'- gGGGGgcggCGGCAACGGCaaacCACCc--- -3' miRNA: 3'- -UCCCa---GCCGUUGCCGcua-GUGGacag -5' |
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| 12132 | 5' | -57.5 | NC_003309.1 | + | 45717 | 0.66 | 0.568471 |
|
Target: 5'- cGGGUCcGUGACGaGCGucaGCUUGUCa -3' miRNA: 3'- uCCCAGcCGUUGC-CGCuagUGGACAG- -5' |
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| 12132 | 5' | -57.5 | NC_003309.1 | + | 4633 | 0.67 | 0.524946 |
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Target: 5'- cGGGaggcgcgaacuUCGGCAGCGauGCGAUUgauugcuGCCUGUg -3' miRNA: 3'- uCCC-----------AGCCGUUGC--CGCUAG-------UGGACAg -5' |
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| 12132 | 5' | -57.5 | NC_003309.1 | + | 30895 | 0.68 | 0.484768 |
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Target: 5'- aAGGcUCGGCGuacaACGuGCGAUCgaACCUaGUCg -3' miRNA: 3'- -UCCcAGCCGU----UGC-CGCUAG--UGGA-CAG- -5' |
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| 12132 | 5' | -57.5 | NC_003309.1 | + | 42654 | 0.77 | 0.118638 |
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Target: 5'- cGGGcCGGCGAUGGCGu---CCUGUCg -3' miRNA: 3'- uCCCaGCCGUUGCCGCuaguGGACAG- -5' |
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| 12132 | 5' | -57.5 | NC_003309.1 | + | 18665 | 1.08 | 0.000668 |
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Target: 5'- uAGGGUCGGCAACGGCGAUCACCUGUCc -3' miRNA: 3'- -UCCCAGCCGUUGCCGCUAGUGGACAG- -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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