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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
9484 | 5' | -53.5 | NC_002531.1 | + | 124269 | 0.68 | 0.918858 |
Target: 5'- cUCUGCAUCCG-GAgGCcGUCUGUCUGc -3' miRNA: 3'- -GGGCGUAGGCgCU-UGaUAGACAGGCu -5' |
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9484 | 5' | -53.5 | NC_002531.1 | + | 30172 | 0.79 | 0.35396 |
Target: 5'- uCCCGCAcCCGCucACUGUCUGUCUa- -3' miRNA: 3'- -GGGCGUaGGCGcuUGAUAGACAGGcu -5' |
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9484 | 5' | -53.5 | NC_002531.1 | + | 30295 | 1.11 | 0.003408 |
Target: 5'- cCCCGCAUCCGCGAACUAUCUGUCCGAg -3' miRNA: 3'- -GGGCGUAGGCGCUUGAUAGACAGGCU- -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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