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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12045 | 5' | -52.1 | NC_003298.1 | + | 21604 | 0.68 | 0.639164 |
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Target: 5'- cGAGGUGGUUGAGGUuCC-GCACCuGa -3' miRNA: 3'- aCUCCAUCGGUUUCGuGGuUGUGGuC- -5' |
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| 12045 | 5' | -52.1 | NC_003298.1 | + | 6123 | 0.66 | 0.742762 |
|
Target: 5'- cGAGcagggcgaacaGUGGCaAGAGCGCCGugACCGc -3' miRNA: 3'- aCUC-----------CAUCGgUUUCGUGGUugUGGUc -5' |
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| 12045 | 5' | -52.1 | NC_003298.1 | + | 19665 | 1.09 | 0.001189 |
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Target: 5'- uUGAGGUAGCCAAAGCACCAACACCAGc -3' miRNA: 3'- -ACUCCAUCGGUUUCGUGGUUGUGGUC- -5' |
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| 12045 | 5' | -52.1 | NC_003298.1 | + | 19708 | 0.74 | 0.299725 |
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Target: 5'- uUGAGGccAGCCuuGGCAgCAGCACCu- -3' miRNA: 3'- -ACUCCa-UCGGuuUCGUgGUUGUGGuc -5' |
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| 12045 | 5' | -52.1 | NC_003298.1 | + | 9474 | 0.7 | 0.501183 |
|
Target: 5'- cGaAGGUAGCCAGuuCgACCAGCAUCAc -3' miRNA: 3'- aC-UCCAUCGGUUucG-UGGUUGUGGUc -5' |
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| 12045 | 5' | -52.1 | NC_003298.1 | + | 18165 | 0.7 | 0.534787 |
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Target: 5'- -uAGGUAGCUuuAGCACCGucuuCGCCc- -3' miRNA: 3'- acUCCAUCGGuuUCGUGGUu---GUGGuc -5' |
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| 12045 | 5' | -52.1 | NC_003298.1 | + | 36005 | 0.66 | 0.742762 |
|
Target: 5'- gGAGaGUGGUCAGgcuuGGCaggGCCAACAUCGa -3' miRNA: 3'- aCUC-CAUCGGUU----UCG---UGGUUGUGGUc -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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