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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
11238 | 3' | -43.9 | NC_003045.1 | + | 5361 | 0.66 | 0.994768 |
Target: 5'- gAUACAAAUCuagCAGggcGGCCAGaacgaaauucaaGCCa -3' miRNA: 3'- gUAUGUUUAGua-GUCa--UCGGUUg-----------UGG- -5' |
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11238 | 3' | -43.9 | NC_003045.1 | + | 5874 | 0.67 | 0.990107 |
Target: 5'- uCAUcCAAAUaauaGGUGGUUAACACCg -3' miRNA: 3'- -GUAuGUUUAguagUCAUCGGUUGUGG- -5' |
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11238 | 3' | -43.9 | NC_003045.1 | + | 6143 | 1.16 | 0.002865 |
Target: 5'- aCAUACAAAUCAUCAGUAGCCAACACCa -3' miRNA: 3'- -GUAUGUUUAGUAGUCAUCGGUUGUGG- -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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