miRNA: 3'- -ACGUAGGGa-----CC---CGGCGGCUAGG-CCUg -5'
miRNA: 3'- aCGuAGGGAcCCGGCGGCUAgGCCUG- -5'
miRNA: 3'- acguaGG-GACC-CGGCGGCUaGGCCUg -5'
miRNA: 3'- -ACGUAGGGAC----------CCGGCGGcUA--GGCCUG- -5'
Results 41 - 44 of 44 are showing below:
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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 | |||||||
| 15866 | 5' | -62.1 | NC_004065.1 | + | 126064 | 0.67 | 0.687954 |
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Target: 5'- cUGCGUCUCggugaaGGucaGCCGCUGGUCCaGGAa -3' miRNA: 3'- -ACGUAGGGa-----CC---CGGCGGCUAGG-CCUg -5' |
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| 15866 | 5' | -62.1 | NC_004065.1 | + | 48223 | 0.67 | 0.678447 |
|
Target: 5'- gGC-UCUUUcGGCUGCCGAUgCGGAUg -3' miRNA: 3'- aCGuAGGGAcCCGGCGGCUAgGCCUG- -5' |
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| 15866 | 5' | -62.1 | NC_004065.1 | + | 90116 | 0.67 | 0.668908 |
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Target: 5'- ----cCCgCUGGcGCCGCCGG-CCGGAg -3' miRNA: 3'- acguaGG-GACC-CGGCGGCUaGGCCUg -5' |
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| 15866 | 5' | -62.1 | NC_004065.1 | + | 106999 | 0.78 | 0.170804 |
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Target: 5'- gUGCAUCCCUGacgaguacguGGCCGCCaAUacCCGGACg -3' miRNA: 3'- -ACGUAGGGAC----------CCGGCGGcUA--GGCCUG- -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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