miRNA: 3'- gaUUUA-UCGUGG--------CGGGUuaCCGCUCc -5'
miRNA: 3'- gauuuaUC-GUGGCGGGUuACCGCUCc -5'
miRNA: 3'- -GAUUUAUCGUGGCGGGUUACCGCUCC- -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 |
| Predicted miRNA align pattern | |||||||
| 4402 | 5' | -51.2 | NC_001724.1 | + | 4077 | 0.69 | 0.297151 |
|
Target: 5'- -aGAGUcAGCACUagagcuauGCCCAcgGGUGAGa -3' miRNA: 3'- gaUUUA-UCGUGG--------CGGGUuaCCGCUCc -5' |
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| 4402 | 5' | -51.2 | NC_001724.1 | + | 8792 | 0.69 | 0.288609 |
|
Target: 5'- -----aGGuCGCCGCCUAcUGGUGAGa -3' miRNA: 3'- gauuuaUC-GUGGCGGGUuACCGCUCc -5' |
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| 4402 | 5' | -51.2 | NC_001724.1 | + | 8795 | 1.12 | 0.000159 |
|
Target: 5'- cCUAAAUAGCACCGCCCAAUGGCGAGGa -3' miRNA: 3'- -GAUUUAUCGUGGCGGGUUACCGCUCC- -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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