miRNA: 3'- aaGCGGU-CG-UUGG-------------AGGCGCGCGUCGU- -5'
miRNA: 3'- aAGCGGUCG-------------UUGGAGGCGCGCGUCgU- -5'
miRNA: 3'- -AAGCGGUCGUUGGAGGCGCGCGUCGU- -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 | |||||||
| 2229 | 5' | -60.6 | NC_001405.1 | + | 8267 | 0.75 | 0.065642 |
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Target: 5'- -aCGCCGcGCgAGCCcaaaguccagaugUCCGCGCGCGGCGg -3' miRNA: 3'- aaGCGGU-CG-UUGG-------------AGGCGCGCGUCGU- -5' |
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| 2229 | 5' | -60.6 | NC_001405.1 | + | 17528 | 0.75 | 0.061887 |
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Target: 5'- gUCGCCAGCccgugcuggccccGAUUUCCGUGCGCAGgGu -3' miRNA: 3'- aAGCGGUCG-------------UUGGAGGCGCGCGUCgU- -5' |
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| 2229 | 5' | -60.6 | NC_001405.1 | + | 8729 | 1.05 | 0.000236 |
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Target: 5'- gUUCGCCAGCAACCUCCGCGCGCAGCAc -3' miRNA: 3'- -AAGCGGUCGUUGGAGGCGCGCGUCGU- -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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