miRNA: 3'- gUGCCgAAAcUGUUuUCUCACAUCaa -5'
miRNA: 3'- -GUGCCGAaaCUGUUU---UCUCaCAUCAa -5'
miRNA: 3'- -GUGCCGaaa-CUGuUUUCUCACAUCaa -5'
miRNA: 3'- -GUGCCGAAACUGUUUUCUCACAUCAA- -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 | |||||||
| 26214 | 3' | -46 | NC_005342.2 | + | 5933 | 0.66 | 0.984499 |
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Target: 5'- gACGGgUUUuGCAGuGGGGUGUAGa- -3' miRNA: 3'- gUGCCgAAAcUGUUuUCUCACAUCaa -5' |
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| 26214 | 3' | -46 | NC_005342.2 | + | 14179 | 0.7 | 0.921466 |
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Target: 5'- gCGCGGCUgcGGCGAAcacGGGGaGUGGUa -3' miRNA: 3'- -GUGCCGAaaCUGUUU---UCUCaCAUCAa -5' |
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| 26214 | 3' | -46 | NC_005342.2 | + | 31467 | 0.72 | 0.849286 |
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Target: 5'- uCGCGGCccgaGAC-AGAGAGUGUGGa- -3' miRNA: 3'- -GUGCCGaaa-CUGuUUUCUCACAUCaa -5' |
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| 26214 | 3' | -46 | NC_005342.2 | + | 40263 | 1.05 | 0.011497 |
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Target: 5'- gCACGGCUUUGACAAAAGAGUGUAGUUu -3' miRNA: 3'- -GUGCCGAAACUGUUUUCUCACAUCAA- -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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