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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
21018 | 3' | -59.2 | NC_004735.1 | + | 72659 | 0.66 | 0.715328 |
Target: 5'- ---cGGGCGAUaaGGUUgaugCGUgGGUGCCa -3' miRNA: 3'- uacaCCCGCUG--CCGAa---GCA-CCACGGg -5' |
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21018 | 3' | -59.2 | NC_004735.1 | + | 119525 | 0.71 | 0.44909 |
Target: 5'- gAUGcGGGUGAUGGUggaaGUGGUGCUg -3' miRNA: 3'- -UACaCCCGCUGCCGaag-CACCACGGg -5' |
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21018 | 3' | -59.2 | NC_004735.1 | + | 84585 | 1.1 | 0.001012 |
Target: 5'- cAUGUGGGCGACGGCUUCGUGGUGCCCg -3' miRNA: 3'- -UACACCCGCUGCCGAAGCACCACGGG- -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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