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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
2778 | 5' | -40.8 | NC_001491.2 | + | 21244 | 0.66 | 1 |
Target: 5'- cCGccACC--GUCGAUGCUCAGgcUCc -3' miRNA: 3'- aGCuaUGGauUAGCUAUGAGUUaaAG- -5' |
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2778 | 5' | -40.8 | NC_001491.2 | + | 28482 | 0.66 | 1 |
Target: 5'- aUGAU-CCUcAUCGAggACUCuuUUUCg -3' miRNA: 3'- aGCUAuGGAuUAGCUa-UGAGuuAAAG- -5' |
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2778 | 5' | -40.8 | NC_001491.2 | + | 74468 | 0.89 | 0.753873 |
Target: 5'- aUCGAUACCUAAUCGAUACgcauGUUUUg -3' miRNA: 3'- -AGCUAUGGAUUAGCUAUGagu-UAAAG- -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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