miRNA: 3'- gCAGCAGAGGG--GGCCagCGgUAGCGA- -5'
miRNA: 3'- -GCAGCAg----AGG-GGGCCAG-----------CGGUAGCGA- -5'
miRNA: 3'- gcAGCAGAgGGGGCCAGCGGuaGCGA- -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 |
| Predicted miRNA align pattern | |||||||
| 16013 | 5' | -60.6 | NC_004065.1 | + | 18250 | 0.7 | 0.616663 |
|
Target: 5'- aGUCGUCUCCCgaCUGGagGC-GUCGCUc -3' miRNA: 3'- gCAGCAGAGGG--GGCCagCGgUAGCGA- -5' |
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| 16013 | 5' | -60.6 | NC_004065.1 | + | 7740 | 0.66 | 0.808723 |
|
Target: 5'- uCGUCGUguacaUCUaCCUGGUCucggacgucagGCCGUCGCUg -3' miRNA: 3'- -GCAGCAg----AGG-GGGCCAG-----------CGGUAGCGA- -5' |
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| 16013 | 5' | -60.6 | NC_004065.1 | + | 2420 | 0.66 | 0.832709 |
|
Target: 5'- -uUCGUCU-UCUCGGUCGCCc-CGCUa -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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