miRNA: 3'- -GUCuCGUCGCUGa-GCCACC-UUAAucu -5'
miRNA: 3'- guCUCGUCG------------CugAGCCACCuua--AUCU- -5'
miRNA: 3'- guCUCGUcGCugAGCCa-CCUUAAUcu -5'
miRNA: 3'- guCUCGUcGCUGAGCCA---CCUUAAUcu -5'
miRNA: 3'- -GUCUCGUCGCUGAGCCACCUUAAUCU- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 3525 | 5' | -51.5 | NC_001623.1 | + | 111643 | 0.66 | 0.982566 |
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Target: 5'- gUAG-GCGGCGGCggCGGUGGcAAUUu-- -3' miRNA: 3'- -GUCuCGUCGCUGa-GCCACC-UUAAucu -5' |
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| 3525 | 5' | -51.5 | NC_001623.1 | + | 14476 | 0.66 | 0.980421 |
|
Target: 5'- -cGGGCAGUuguccgcuaaacGugUCGGUGGucaagUAGAu -3' miRNA: 3'- guCUCGUCG------------CugAGCCACCuua--AUCU- -5' |
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| 3525 | 5' | -51.5 | NC_001623.1 | + | 65192 | 0.67 | 0.966665 |
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Target: 5'- -cGAGCAaCGugUCGGcgGGAAUUAu- -3' miRNA: 3'- guCUCGUcGCugAGCCa-CCUUAAUcu -5' |
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| 3525 | 5' | -51.5 | NC_001623.1 | + | 80120 | 0.68 | 0.951575 |
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Target: 5'- -uGGGCGaCGACUCGGUuaaGGAAUUGa- -3' miRNA: 3'- guCUCGUcGCUGAGCCA---CCUUAAUcu -5' |
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| 3525 | 5' | -51.5 | NC_001623.1 | + | 79995 | 1.09 | 0.00654 |
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Target: 5'- gCAGAGCAGCGACUCGGUGGAAUUAGAc -3' miRNA: 3'- -GUCUCGUCGCUGAGCCACCUUAAUCU- -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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