miRNA: 3'- gCCCGAAAAGAc-AUGug-UCCGGAAGu -5'
miRNA: 3'- gCCCGaaaa--GACauGUGUCCGGaagu -5'
miRNA: 3'- -GCCCGAAa--AGaC-AUGUGUCCGGa--AGU- -5'
miRNA: 3'- -GCCCGAAAAGACAUGUGUCCGGAAGU- -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 | |||||||
| 31924 | 5' | -51.3 | NC_006940.1 | + | 18904 | 0.66 | 0.801242 |
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Target: 5'- gGGGCUUUUCUuuUAUucaAGGUCUUCu -3' miRNA: 3'- gCCCGAAAAGAc-AUGug-UCCGGAAGu -5' |
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| 31924 | 5' | -51.3 | NC_006940.1 | + | 36965 | 0.67 | 0.759035 |
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Target: 5'- aGGGCggcaacCUGgcCGCAGGCCa--- -3' miRNA: 3'- gCCCGaaaa--GACauGUGUCCGGaagu -5' |
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| 31924 | 5' | -51.3 | NC_006940.1 | + | 12488 | 0.7 | 0.575395 |
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Target: 5'- gCGGGCUUgugUCaGuUAUAUAGGCCgugUCGu -3' miRNA: 3'- -GCCCGAAa--AGaC-AUGUGUCCGGa--AGU- -5' |
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| 31924 | 5' | -51.3 | NC_006940.1 | + | 12523 | 1.09 | 0.001502 |
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Target: 5'- gCGGGCUUUUCUGUACACAGGCCUUCAu -3' miRNA: 3'- -GCCCGAAAAGACAUGUGUCCGGAAGU- -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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