miRNA: 3'- uUUUUUGaUCGGGCU---UCCGAUCGAUa -5'
miRNA: 3'- uuuuUUGAUCGGGcuUCCGAUCGAua -5'
miRNA: 3'- -UUUUUUGAUCGGGCUUCCGAUCGAUA- -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 | |||||||
| 17738 | 3' | -48.7 | NC_004616.1 | + | 8031 | 0.66 | 0.893209 |
|
Target: 5'- cAAAAGC-AGUCCGAgacAGGUUAGUUGa -3' miRNA: 3'- uUUUUUGaUCGGGCU---UCCGAUCGAUa -5' |
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| 17738 | 3' | -48.7 | NC_004616.1 | + | 44299 | 0.69 | 0.778316 |
|
Target: 5'- ---uAGCUAGCCUucGGGCUAGUUu- -3' miRNA: 3'- uuuuUUGAUCGGGcuUCCGAUCGAua -5' |
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| 17738 | 3' | -48.7 | NC_004616.1 | + | 44368 | 1.04 | 0.005034 |
|
Target: 5'- cAAAAAACUAGCCCGAAGGCUAGCUAUa -3' miRNA: 3'- -UUUUUUGAUCGGGCUUCCGAUCGAUA- -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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