miRNA: 3'- cgGUCGGagAUGUCUAUUa-AACA-GUC- -5'
miRNA: 3'- -CGGuCGGAGAUGUCUAUuaaacagUC- -5'
miRNA: 3'- cgGUCGGAGAu-----------GUCUAUUAAA-CAGUC- -5'
miRNA: 3'- -CGGUCGGAGAUGUCuAUu-AAACa--GUC- -5'
miRNA: 3'- -CGGUCGGAGAUGUCUAUUAAACAGUC- -5'
Results 1 - 5 of 5 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 | |||||||
| 24795 | 5' | -46.2 | NC_005282.1 | + | 29791 | 0.66 | 0.999163 |
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Target: 5'- -aCAGCUuaUGCAGAUGAagUUGUgCAGa -3' miRNA: 3'- cgGUCGGagAUGUCUAUUa-AACA-GUC- -5' |
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| 24795 | 5' | -46.2 | NC_005282.1 | + | 79012 | 0.69 | 0.989119 |
|
Target: 5'- uGCC-GCCUCUACAGAUAuggaagaAGg -3' miRNA: 3'- -CGGuCGGAGAUGUCUAUuaaacagUC- -5' |
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| 24795 | 5' | -46.2 | NC_005282.1 | + | 17724 | 0.69 | 0.986071 |
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Target: 5'- -aUAGCCUCUucuacaacagacCAGAUAAUUUcGUCAGu -3' miRNA: 3'- cgGUCGGAGAu-----------GUCUAUUAAA-CAGUC- -5' |
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| 24795 | 5' | -46.2 | NC_005282.1 | + | 42647 | 0.73 | 0.926468 |
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Target: 5'- aGUUAGCCUCUACAGcUAucUUUGgagCAGa -3' miRNA: 3'- -CGGUCGGAGAUGUCuAUu-AAACa--GUC- -5' |
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| 24795 | 5' | -46.2 | NC_005282.1 | + | 33854 | 1.12 | 0.008332 |
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Target: 5'- aGCCAGCCUCUACAGAUAAUUUGUCAGu -3' miRNA: 3'- -CGGUCGGAGAUGUCUAUUAAACAGUC- -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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