miRNA: 3'- uaGGacGGGCUCGUCUGGCGG----GGCCG- -5'
miRNA: 3'- uaGGac-GGGCUCGUCUGGC-GGGGCcg -5'
miRNA: 3'- uAGGa--CG-GGCUCGUCUGGCGG----GGCCg -5'
Results 41 - 43 of 43 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 | |||||||
| 23469 | 5' | -64.2 | NC_005259.1 | + | 26105 | 0.75 | 0.081569 |
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Target: 5'- -aCC--CCCGAGCAGACCGCCgccgCCGGUc -3' miRNA: 3'- uaGGacGGGCUCGUCUGGCGG----GGCCG- -5' |
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| 23469 | 5' | -64.2 | NC_005259.1 | + | 18578 | 0.75 | 0.07941 |
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Target: 5'- -gCCgacCCCGAGCAGACCGaCCCCGa- -3' miRNA: 3'- uaGGac-GGGCUCGUCUGGC-GGGGCcg -5' |
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| 23469 | 5' | -64.2 | NC_005259.1 | + | 47273 | 0.75 | 0.073256 |
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Target: 5'- uUCCagcGCaCCGAGCAGACCGCCgucgCCGGa -3' miRNA: 3'- uAGGa--CG-GGCUCGUCUGGCGG----GGCCg -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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