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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
12037 | 5' | -41.9 | NC_003287.2 | + | 978 | 0.68 | 0.74102 |
Target: 5'- aGAACCGgauauucaUUACCCAAAUCAAcGUa---- -3' miRNA: 3'- -CUUGGU--------AGUGGGUUUAGUU-CAaaaaa -5' |
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12037 | 5' | -41.9 | NC_003287.2 | + | 5718 | 0.73 | 0.470154 |
Target: 5'- uGGGCCAUCGCCCuGAUagacGGUUUUUc -3' miRNA: 3'- -CUUGGUAGUGGGuUUAgu--UCAAAAAa -5' |
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12037 | 5' | -41.9 | NC_003287.2 | + | 5717 | 1.07 | 0.001922 |
Target: 5'- uGAACCAUCACCCAAAUCAAGUUUUUUg -3' miRNA: 3'- -CUUGGUAGUGGGUUUAGUUCAAAAAA- -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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