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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
3325 | 3' | -44.9 | NC_001547.1 | + | 3751 | 0.69 | 0.731782 |
Target: 5'- -gGUCGuaccgugCCUGCGGcGGAAAcccgAAACCa -3' miRNA: 3'- caCAGCua-----GGAUGCC-UCUUUa---UUUGG- -5' |
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3325 | 3' | -44.9 | NC_001547.1 | + | 812 | 1.14 | 0.000997 |
Target: 5'- aGUGUCGAUCCUACGGAGAAAUAAACCc -3' miRNA: 3'- -CACAGCUAGGAUGCCUCUUUAUUUGG- -5' |
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3325 | 3' | -44.9 | NC_001547.1 | + | 5568 | 0.69 | 0.756829 |
Target: 5'- --aUCGuuuUCCgACGGAGAGAUugaugagcuGAGCCg -3' miRNA: 3'- cacAGCu--AGGaUGCCUCUUUA---------UUUGG- -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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