miRNA: 3'- aaCUGAgauaCACCagCCGCAGCCAC- -5'
miRNA: 3'- aaCUGAGAUa--CACCAgcCGCAGCCac -5'
miRNA: 3'- aaCUGAGAUa---CaCCAGCCG--CAGCCac -5'
miRNA: 3'- aaCUGAGauaCACCa---GCCG--CAGCCAC- -5'
miRNA: 3'- -AACUGAGAUACACCAGCCGCAGCCAC- -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 | |||||||
| 5576 | 5' | -54.5 | NC_001806.1 | + | 34080 | 0.66 | 0.92864 |
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Target: 5'- -aGACUggg-GUGGg-GGUGUCGGUGg -3' miRNA: 3'- aaCUGAgauaCACCagCCGCAGCCAC- -5' |
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| 5576 | 5' | -54.5 | NC_001806.1 | + | 84889 | 0.67 | 0.898919 |
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Target: 5'- -gGACUCUGggcGUGGU--GCGUCGGg- -3' miRNA: 3'- aaCUGAGAUa--CACCAgcCGCAGCCac -5' |
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| 5576 | 5' | -54.5 | NC_001806.1 | + | 69597 | 0.68 | 0.8782 |
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Target: 5'- -cGGCUCUGcgagGcGGUCGGCcuGUCGGg- -3' miRNA: 3'- aaCUGAGAUa---CaCCAGCCG--CAGCCac -5' |
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| 5576 | 5' | -54.5 | NC_001806.1 | + | 5082 | 0.72 | 0.645848 |
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Target: 5'- -gGGCUCgggGUGGgcggCGGCccGUCGGUGg -3' miRNA: 3'- aaCUGAGauaCACCa---GCCG--CAGCCAC- -5' |
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| 5576 | 5' | -54.5 | NC_001806.1 | + | 125619 | 1.06 | 0.005525 |
|
Target: 5'- cUUGACUCUAUGUGGUCGGCGUCGGUGa -3' miRNA: 3'- -AACUGAGAUACACCAGCCGCAGCCAC- -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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