miRNA: 3'- -AAGUaCCGGCuUGU-UGAGC-GG-GUCGc -5'
miRNA: 3'- aaguaCCGGCUU--------------GUUGa-GCGGGUCGc -5'
miRNA: 3'- aAGUa-CCGGCUUgu---UGAG-------CGGGUCGC- -5'
miRNA: 3'- aaGUACCGGCUuguuGAgCGGGUCgC- -5'
Results 21 - 24 of 24 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 | |||||||
| 12017 | 3' | -55.8 | NC_003278.1 | + | 10189 | 0.66 | 0.50682 |
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Target: 5'- cUUCGaGGCCG-ACAuGCUCGaCCgCAGCa -3' miRNA: 3'- -AAGUaCCGGCuUGU-UGAGC-GG-GUCGc -5' |
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| 12017 | 3' | -55.8 | NC_003278.1 | + | 9488 | 0.66 | 0.514455 |
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Target: 5'- ----aGGCCGAGuuggcgaggaaagcCAGCgaCGCCCAGCu -3' miRNA: 3'- aaguaCCGGCUU--------------GUUGa-GCGGGUCGc -5' |
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| 12017 | 3' | -55.8 | NC_003278.1 | + | 15148 | 0.66 | 0.516645 |
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Target: 5'- aUCAagGGCCGGAauaucACUCgcuacaaGCCCAGUGg -3' miRNA: 3'- aAGUa-CCGGCUUgu---UGAG-------CGGGUCGC- -5' |
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| 12017 | 3' | -55.8 | NC_003278.1 | + | 21449 | 0.66 | 0.528757 |
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Target: 5'- -cCAUGGCCGGc---CUgGCCCAGgGc -3' miRNA: 3'- aaGUACCGGCUuguuGAgCGGGUCgC- -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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