miRNA: 3'- caGG-UGGG-ACUcuUGGCACUUUAGca -5'
miRNA: 3'- -CAGGU-GG-GACUCuuGGCACU---UUAGCa -5'
miRNA: 3'- cAGG--UGGGACUCUUGGCaCUU--UAGCa -5'
miRNA: 3'- -CAGGUGGGACUCUUGGCACUUUAGCA- -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 | |||||||
| 8189 | 5' | -51.6 | NC_001978.2 | + | 5421 | 0.66 | 0.836776 |
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Target: 5'- -cCCgACCCgUGAucACCGUGAAGUCc- -3' miRNA: 3'- caGG-UGGG-ACUcuUGGCACUUUAGca -5' |
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| 8189 | 5' | -51.6 | NC_001978.2 | + | 32335 | 0.66 | 0.807922 |
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Target: 5'- cGUCCGuCCgCUGGGcgUCGUGAcccGGUCGa -3' miRNA: 3'- -CAGGU-GG-GACUCuuGGCACU---UUAGCa -5' |
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| 8189 | 5' | -51.6 | NC_001978.2 | + | 16033 | 0.75 | 0.348376 |
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Target: 5'- uUCCggACCCUGGGGACCGgGAAccGUCGa -3' miRNA: 3'- cAGG--UGGGACUCUUGGCaCUU--UAGCa -5' |
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| 8189 | 5' | -51.6 | NC_001978.2 | + | 21843 | 1.07 | 0.002134 |
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Target: 5'- cGUCCACCCUGAGAACCGUGAAAUCGUc -3' miRNA: 3'- -CAGGUGGGACUCUUGGCACUUUAGCA- -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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