miRNA: 3'- -GCAGCAGa-----------GGGGGC---------CAGCGGUAGCGa -5'
miRNA: 3'- -GCAGCagagGGGGCCaGCgGUAGCGa -5'
miRNA: 3'- -GCAGCAGaGGgGGCCAgCGGUAGCGa -5'
Results 41 - 43 of 43 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 16013 | 5' | -60.6 | NC_004065.1 | + | 56018 | 0.68 | 0.718942 |
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Target: 5'- uCGUCGUCaugcugccggagCUCCUGuucgucaucGUCGCCGUCGCg -3' miRNA: 3'- -GCAGCAGa-----------GGGGGC---------CAGCGGUAGCGa -5' |
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| 16013 | 5' | -60.6 | NC_004065.1 | + | 66740 | 0.68 | 0.730007 |
|
Target: 5'- cCGUCGga--CCCCGG-CGgCGUCGCg -3' miRNA: 3'- -GCAGCagagGGGGCCaGCgGUAGCGa -5' |
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| 16013 | 5' | -60.6 | NC_004065.1 | + | 209307 | 0.72 | 0.522685 |
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Target: 5'- cCGUCGUCgCCgUCGGU-GCCGUCGUg -3' miRNA: 3'- -GCAGCAGaGGgGGCCAgCGGUAGCGa -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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