miRNA: 3'- -GGuauuucaCGGCGCGGCCGGUaUGU- -5'
miRNA: 3'- -GGuauUUCaCGGCGCGGCCGgUaugu -5'
miRNA: 3'- gGUAUUUC-ACG-----------GCGCGGCCGGuAUGU- -5'
miRNA: 3'- -GGUAUUUCACGGCGCGGCCGGUAUGU- -5'
Results 1 - 4 of 4 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 | |||||||
| 6201 | 3' | -53.7 | NC_001844.1 | + | 140738 | 0.66 | 0.959042 |
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Target: 5'- cCCucuucg-GCCGCGCUGGCUGcGCGg -3' miRNA: 3'- -GGuauuucaCGGCGCGGCCGGUaUGU- -5' |
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| 6201 | 3' | -53.7 | NC_001844.1 | + | 136278 | 0.66 | 0.95198 |
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Target: 5'- aCCu--AGGcGCCGCGCCGGUgGa--- -3' miRNA: 3'- -GGuauUUCaCGGCGCGGCCGgUaugu -5' |
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| 6201 | 3' | -53.7 | NC_001844.1 | + | 26379 | 0.66 | 0.947723 |
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Target: 5'- gCGUAGAGcUGUguucgcauuuaCGCGCUGGCUcUACAc -3' miRNA: 3'- gGUAUUUC-ACG-----------GCGCGGCCGGuAUGU- -5' |
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| 6201 | 3' | -53.7 | NC_001844.1 | + | 17213 | 1.11 | 0.003346 |
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Target: 5'- gCCAUAAAGUGCCGCGCCGGCCAUACAg -3' miRNA: 3'- -GGUAUUUCACGGCGCGGCCGGUAUGU- -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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