miRNA: 3'- -GGGUAa----GAaa---UGUCACa--CUUUAgUAC- -5'
miRNA: 3'- -GGGUAAGAAAUgUCACAcuuUAGUAC- -5'
miRNA: 3'- gGGUaAGAAAUGUCACACUUUAGUAC- -5'
miRNA: 3'- -GGGUAAGAAAUGUCACACUUUAGUAC- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 4035 | 3' | -41.5 | NC_001650.1 | + | 83420 | 0.66 | 1 |
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Target: 5'- cCCCGUgagggCUgcgggACAGUGaugGAGAUgAUGg -3' miRNA: 3'- -GGGUAa----GAaa---UGUCACa--CUUUAgUAC- -5' |
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| 4035 | 3' | -41.5 | NC_001650.1 | + | 160611 | 0.74 | 0.999912 |
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Target: 5'- cCCCAUUCUUUG-AGUGUc--AUCAUGg -3' miRNA: 3'- -GGGUAAGAAAUgUCACAcuuUAGUAC- -5' |
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| 4035 | 3' | -41.5 | NC_001650.1 | + | 22387 | 0.99 | 0.324248 |
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Target: 5'- gCCAcUCUUUACAGUGUGAAAUCAUGc -3' miRNA: 3'- gGGUaAGAAAUGUCACACUUUAGUAC- -5' |
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| 4035 | 3' | -41.5 | NC_001650.1 | + | 161791 | 1.13 | 0.060992 |
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Target: 5'- cCCCAUUCUUUACAGUGUGAAAUCAUGu -3' miRNA: 3'- -GGGUAAGAAAUGUCACACUUUAGUAC- -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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