miRNA: 3'- -CCUGAGG-CGaCCUCAGG--------------AUAUGGUAU- -5'
miRNA: 3'- -CCUGa-GGCG-------ACCUCAGGAuaUGGUau -5'
miRNA: 3'- -CCUGAGGCGACCUCAGGAUAUGGUAU- -5'
Results 1 - 3 of 3 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 | |||||||
| 16512 | 5' | -52.8 | NC_004096.1 | + | 2471 | 0.67 | 0.076945 |
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Target: 5'- aGGACUCCaGC-GGAGUCCcucaacuccugucaUAUAUUGUGg -3' miRNA: 3'- -CCUGAGG-CGaCCUCAGG--------------AUAUGGUAU- -5' |
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| 16512 | 5' | -52.8 | NC_004096.1 | + | 3 | 0.69 | 0.051167 |
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Target: 5'- uGGAUggCCGCgauuuuuUGGAGUCCU--GCCAg- -3' miRNA: 3'- -CCUGa-GGCG-------ACCUCAGGAuaUGGUau -5' |
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| 16512 | 5' | -52.8 | NC_004096.1 | + | 2491 | 1.09 | 1.3e-05 |
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Target: 5'- gGGACUCCGCUGGAGUCCUAUACCAUAu -3' miRNA: 3'- -CCUGAGGCGACCUCAGGAUAUGGUAU- -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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