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miRNA: 3'- -CCCGGAAGUAUAAGAACGCUUCCAGC- -5'
miRNA: 3'- cCCGGAAGUAUaAGAa-CGcUUCCAGC- -5'
miRNA: 3'- -CC-CGGAAGUA--UAAGaa------CGCUUC-CAGc -5'
miRNA: 3'- -CCCGGAAGUAUaagaaCGCU------UCCAGc -5'
Results 1 - 4 of 4 are showing below:
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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 | |||||||
| 22064 | 5' | -48.8 | NC_004927.1 | + | 35366 | 1.13 | 0.004048 |
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Target: 5'- uGGGCCUUCAUAUUCUUGCGAAGGUCGa -3' miRNA: 3'- -CCCGGAAGUAUAAGAACGCUUCCAGC- -5' |
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| 22064 | 5' | -48.8 | NC_004927.1 | + | 41206 | 0.7 | 0.909645 |
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Target: 5'- cGGUCUUCGUAgUCUcgGUcGAGGUCGu -3' miRNA: 3'- cCCGGAAGUAUaAGAa-CGcUUCCAGC- -5' |
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| 22064 | 5' | -48.8 | NC_004927.1 | + | 47254 | 0.69 | 0.949064 |
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Target: 5'- gGGaGCCUUCAUuaAUUCgacuggugGCGAGGcGUCc -3' miRNA: 3'- -CC-CGGAAGUA--UAAGaa------CGCUUC-CAGc -5' |
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| 22064 | 5' | -48.8 | NC_004927.1 | + | 25034 | 0.68 | 0.957775 |
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Target: 5'- cGGGCCUUCGUA-----GCGGgagauuAGGUCu -3' miRNA: 3'- -CCCGGAAGUAUaagaaCGCU------UCCAGc -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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