miRNA: 3'- aGGaGGGUG-UUUCUCCaCUCGCGCau -5'
miRNA: 3'- -AGGAGGGUGUu--UC--------------UCCACUCGCgCAU- -5'
miRNA: 3'- -AGGAGGGUGUUUCUCCACUCGCGCAU- -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
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| Predicted miRNA align pattern | |||||||
| 5554 | 5' | -55.4 | NC_001806.1 | + | 3535 | 0.71 | 0.641291 |
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Target: 5'- gCCcCCCGCgGGGGAGGcGGGCGCGg- -3' miRNA: 3'- aGGaGGGUG-UUUCUCCaCUCGCGCau -5' |
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| 5554 | 5' | -55.4 | NC_001806.1 | + | 121991 | 0.72 | 0.627793 |
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Target: 5'- uUCCUCCCGCGucuGGuuguguguguauguGGGUGGGUGgGUGu -3' miRNA: 3'- -AGGAGGGUGUu--UC--------------UCCACUCGCgCAU- -5' |
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| 5554 | 5' | -55.4 | NC_001806.1 | + | 138177 | 1.07 | 0.004049 |
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Target: 5'- cUCCUCCCACAAAGAGGUGAGCGCGUAc -3' miRNA: 3'- -AGGAGGGUGUUUCUCCACUCGCGCAU- -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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