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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
13063 | 5' | -50.4 | NC_003390.1 | + | 8812 | 0.68 | 0.802428 |
Target: 5'- aGGGCUAUuccauGCuUCGUGGUAuGGGAa- -3' miRNA: 3'- -CCCGAUGuu---UGuAGCACCGU-UCCUcu -5' |
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13063 | 5' | -50.4 | NC_003390.1 | + | 14745 | 0.78 | 0.287058 |
Target: 5'- uGGGCUuuCGAGCAccaUCGUGGguGGGAGc -3' miRNA: 3'- -CCCGAu-GUUUGU---AGCACCguUCCUCu -5' |
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13063 | 5' | -50.4 | NC_003390.1 | + | 12421 | 1.12 | 0.00159 |
Target: 5'- uGGGCUACAAACAUCGUGGCAAGGAGAa -3' miRNA: 3'- -CCCGAUGUUUGUAGCACCGUUCCUCU- -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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