miRNA: 3'- uaGCGGGgCUGCGGA--CGUUA---GUUGCC- -5'
miRNA: 3'- -UAGCGGGGCUGCG----------GACGUUaGUU--GCC- -5'
miRNA: 3'- uAGCGg------GGCUGCGGa-----CGUUAGUUGCC- -5'
Results 21 - 23 of 23 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 7193 | 5' | -56.5 | NC_001900.1 | + | 10608 | 0.68 | 0.478932 |
|
Target: 5'- -cCGCCU-GACGCCUgaGCAGUaugCAGCGGc -3' miRNA: 3'- uaGCGGGgCUGCGGA--CGUUA---GUUGCC- -5' |
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| 7193 | 5' | -56.5 | NC_001900.1 | + | 10428 | 0.66 | 0.58496 |
|
Target: 5'- gGUCGCCCUGGCGUaacuggucggUUGCAG-CGAucCGGu -3' miRNA: 3'- -UAGCGGGGCUGCG----------GACGUUaGUU--GCC- -5' |
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| 7193 | 5' | -56.5 | NC_001900.1 | + | 4720 | 0.68 | 0.489153 |
|
Target: 5'- uUCGCggauacaUCGACGCCgucgucGUGGUCGACGGg -3' miRNA: 3'- uAGCGg------GGCUGCGGa-----CGUUAGUUGCC- -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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