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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
27356 | 3' | -52.3 | NC_005857.1 | + | 11737 | 0.66 | 0.791202 |
Target: 5'- aGGGGAGCUGCa--GAgccucGCCGUCGGg-- -3' miRNA: 3'- -UUUCUCGACGaagCU-----CGGCAGCUaua -5' |
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27356 | 3' | -52.3 | NC_005857.1 | + | 35330 | 0.67 | 0.748724 |
Target: 5'- aAAGGAGCUGCagCuGGaCGUCGAUGa -3' miRNA: 3'- -UUUCUCGACGaaGcUCgGCAGCUAUa -5' |
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27356 | 3' | -52.3 | NC_005857.1 | + | 8777 | 0.72 | 0.425793 |
Target: 5'- -cAGAGCUGCUggaAGCCGUgGAUAa -3' miRNA: 3'- uuUCUCGACGAagcUCGGCAgCUAUa -5' |
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27356 | 3' | -52.3 | NC_005857.1 | + | 37026 | 1.03 | 0.003611 |
Target: 5'- cAAAGAGCUGCUUCGAGCCGUCGAUAUc -3' miRNA: 3'- -UUUCUCGACGAAGCUCGGCAGCUAUA- -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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