miRNA: 3'- gCCGCU-GCUCUACaC-AGUGgugCCUG- -5'
miRNA: 3'- gcCGCUGCUcUACA-CAG---------UGGUGCCUG- -5'
miRNA: 3'- gCCGCugCUCUacaCAGUGGuGCCuG- -5'
Results 1 - 3 of 3 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 | |||||||
| 22108 | 3' | -55.6 | NC_004927.1 | + | 66971 | 0.66 | 0.794172 |
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Target: 5'- uGGCGAcCGGGAUGcGcUCGCa--GGACg -3' miRNA: 3'- gCCGCU-GCUCUACaC-AGUGgugCCUG- -5' |
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| 22108 | 3' | -55.6 | NC_004927.1 | + | 34098 | 0.67 | 0.71454 |
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Target: 5'- -uGCGGCGA-AUGUcGUCgcuuucaccACCACGGACg -3' miRNA: 3'- gcCGCUGCUcUACA-CAG---------UGGUGCCUG- -5' |
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| 22108 | 3' | -55.6 | NC_004927.1 | + | 53646 | 0.71 | 0.535142 |
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Target: 5'- gGGCGugGAGGga-GUCACCuCGGuCa -3' miRNA: 3'- gCCGCugCUCUacaCAGUGGuGCCuG- -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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