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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
648 | 5' | -45.6 | AC_000017.1 | + | 24112 | 0.66 | 0.989985 |
Target: 5'- uAGGAGAAGGaaAUGGc--CAGUCGGGa -3' miRNA: 3'- -UCUUUUUCUagUACCucaGUCAGCUC- -5' |
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648 | 5' | -45.6 | AC_000017.1 | + | 15554 | 0.7 | 0.906773 |
Target: 5'- uGGAGcgGAAGGUCAcGGGGUCuugcaucauGUCGGGc -3' miRNA: 3'- -UCUU--UUUCUAGUaCCUCAGu--------CAGCUC- -5' |
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648 | 5' | -45.6 | AC_000017.1 | + | 24082 | 1.11 | 0.004659 |
Target: 5'- cAGAAAAAGAUCAUGGAGUCAGUCGAGa -3' miRNA: 3'- -UCUUUUUCUAGUACCUCAGUCAGCUC- -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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