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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
4362 | 5' | -53.4 | NC_001720.1 | + | 3940 | 0.66 | 0.698971 |
Target: 5'- -aUUCGGCUG-UCGGAGAUcgcgAGCGGGa -3' miRNA: 3'- caGAGUCGACgAGCCUUUG----UCGUCUa -5' |
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4362 | 5' | -53.4 | NC_001720.1 | + | 26549 | 0.66 | 0.698971 |
Target: 5'- ---gCGGCUGCgcgagccgccUCGGAAACGGCcGGUg -3' miRNA: 3'- cagaGUCGACG----------AGCCUUUGUCGuCUA- -5' |
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4362 | 5' | -53.4 | NC_001720.1 | + | 19816 | 1.06 | 0.001348 |
Target: 5'- gGUCUCAGCUGCUCGGAAACAGCAGAUa -3' miRNA: 3'- -CAGAGUCGACGAGCCUUUGUCGUCUA- -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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