miRNA: 3'- gaaCCUG-GGC-CCGGaAGCAGaGUCUC- -5'
miRNA: 3'- gaACCUGGGcCCGGAa--GCAGAGUcUC- -5'
miRNA: 3'- gaACCuGGGCCCGGAAgCaGa--GUCUc -5'
miRNA: 3'- -GAACCUGGGCCCGGAAGCAGAGUCUC- -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 | |||||||
| 11849 | 3' | -56.9 | NC_003266.2 | + | 5626 | 0.66 | 0.517604 |
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Target: 5'- --gGGACgCCGcGGUCcUCGUCgUAGAGg -3' miRNA: 3'- gaaCCUG-GGC-CCGGaAGCAGaGUCUC- -5' |
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| 11849 | 3' | -56.9 | NC_003266.2 | + | 26629 | 0.66 | 0.475526 |
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Target: 5'- -cUGGACUUcGGCCUgggCGUCUCGcGGa -3' miRNA: 3'- gaACCUGGGcCCGGAa--GCAGAGUcUC- -5' |
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| 11849 | 3' | -56.9 | NC_003266.2 | + | 16663 | 0.69 | 0.352296 |
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Target: 5'- -gUGGcCCCGGGCCUUgG-CgugCAGAc -3' miRNA: 3'- gaACCuGGGCCCGGAAgCaGa--GUCUc -5' |
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| 11849 | 3' | -56.9 | NC_003266.2 | + | 5725 | 1.08 | 0.000487 |
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Target: 5'- gCUUGGACCCGGGCCUUCGUCUCAGAGu -3' miRNA: 3'- -GAACCUGGGCCCGGAAGCAGAGUCUC- -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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