miRNA: 3'- aCGUUAUCGcGAUGCGUUauCGGGGa -5'
miRNA: 3'- aCGUUA----------UCGCGa---UGCGUU-----AUCGGGGa -5'
miRNA: 3'- aCGUuaUCGCGau-GcGUUAUCGGGGa -5'
miRNA: 3'- -ACGUU------AUC-GCGAUGCGUUa-UCGGGGa -5'
miRNA: 3'- -ACGUUAUCGCGAUGCGUUAUCGGGGA- -5'
Results 21 - 25 of 25 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 | |||||||
| 2638 | 5' | -52.5 | NC_001491.2 | + | 1644 | 0.71 | 0.788994 |
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Target: 5'- cGCGGUGGCuCUGCGCGGc-GCCCUc -3' miRNA: 3'- aCGUUAUCGcGAUGCGUUauCGGGGa -5' |
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| 2638 | 5' | -52.5 | NC_001491.2 | + | 147400 | 0.72 | 0.739568 |
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Target: 5'- gGCAAUaagcgccucgGGCGUgaagACGCAGcuuuuUAGCCCCg -3' miRNA: 3'- aCGUUA----------UCGCGa---UGCGUU-----AUCGGGGa -5' |
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| 2638 | 5' | -52.5 | NC_001491.2 | + | 65403 | 0.73 | 0.698124 |
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Target: 5'- gGCAcaAGCGCgcuCaCAAUAGCCCCg -3' miRNA: 3'- aCGUuaUCGCGau-GcGUUAUCGGGGa -5' |
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| 2638 | 5' | -52.5 | NC_001491.2 | + | 10180 | 0.75 | 0.559939 |
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Target: 5'- cUGCGAcauguuUGGuCGCUACGCGGccAGCCCCa -3' miRNA: 3'- -ACGUU------AUC-GCGAUGCGUUa-UCGGGGa -5' |
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| 2638 | 5' | -52.5 | NC_001491.2 | + | 135922 | 1.09 | 0.004915 |
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Target: 5'- gUGCAAUAGCGCUACGCAAUAGCCCCUa -3' miRNA: 3'- -ACGUUAUCGCGAUGCGUUAUCGGGGA- -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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