miRNA: 3'- gcGAUUGUUCUAGUCG------UCG-CGGGAGu -5'
miRNA: 3'- -GCGAUUGUUCuAgUCGUC-GCGGGagu -5'
miRNA: 3'- gCGAuUGUUCUaGUCguCGCGGgAgu -5'
miRNA: 3'- -GCGAUUGUUCUAGUCGUCGCGGGAGU- -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 | |||||||
| 16899 | 3' | -53.3 | NC_004305.1 | + | 8505 | 0.66 | 0.717038 |
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Target: 5'- -aCUGACGGGAUCAGCcaccauGGCgGCUCUUu -3' miRNA: 3'- gcGAUUGUUCUAGUCG------UCG-CGGGAGu -5' |
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| 16899 | 3' | -53.3 | NC_004305.1 | + | 26637 | 0.66 | 0.717038 |
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Target: 5'- uCGCUGGCAAGuUgAGCAGuUGUCCa-- -3' miRNA: 3'- -GCGAUUGUUCuAgUCGUC-GCGGGagu -5' |
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| 16899 | 3' | -53.3 | NC_004305.1 | + | 31765 | 0.66 | 0.717038 |
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Target: 5'- aGCUuGCAGGAaCAGguGCGCUgUg- -3' miRNA: 3'- gCGAuUGUUCUaGUCguCGCGGgAgu -5' |
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| 16899 | 3' | -53.3 | NC_004305.1 | + | 16721 | 1.09 | 0.000938 |
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Target: 5'- uCGCUAACAAGAUCAGCAGCGCCCUCAg -3' miRNA: 3'- -GCGAUUGUUCUAGUCGUCGCGGGAGU- -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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