miRNA: 3'- gcuCC-CAGA----------CGAGACUUAGAGUCUUG- -5'
miRNA: 3'- gCUCCCAGACGA---------------GAC-UUAGAGUCUug -5'
miRNA: 3'- -GCUCcCaGACGAGACUUaGAGUCUUG- -5'
miRNA: 3'- -GCUCCCAGACGAGACUUAGAGUCUUG- -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 | |||||||
| 31318 | 3' | -51.3 | NC_006623.1 | + | 28501 | 0.69 | 0.94245 |
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Target: 5'- --uGGuGUCUcgccuagagaGUUCUGAGUUUCAGAGCa -3' miRNA: 3'- gcuCC-CAGA----------CGAGACUUAGAGUCUUG- -5' |
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| 31318 | 3' | -51.3 | NC_006623.1 | + | 13224 | 0.75 | 0.681529 |
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Target: 5'- aGAGGGUCUGCUacguaguucaagcuuUUGcAAUCUCGGAc- -3' miRNA: 3'- gCUCCCAGACGA---------------GAC-UUAGAGUCUug -5' |
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| 31318 | 3' | -51.3 | NC_006623.1 | + | 28693 | 0.79 | 0.450328 |
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Target: 5'- gCGAGaGcCUGCUCUGAAaCUCAGAACu -3' miRNA: 3'- -GCUCcCaGACGAGACUUaGAGUCUUG- -5' |
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| 31318 | 3' | -51.3 | NC_006623.1 | + | 28727 | 1.1 | 0.006348 |
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Target: 5'- uCGAGGGUCUGCUCUGAAUCUCAGAACu -3' miRNA: 3'- -GCUCCCAGACGAGACUUAGAGUCUUG- -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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