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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
2754 | 5' | -51.5 | NC_001491.2 | + | 125433 | 0.68 | 0.950934 |
Target: 5'- uGGAACgcCUACUCUGggGagUGUucGGCCGg -3' miRNA: 3'- -UCUUGa-GGUGAGACaaCa-ACA--CCGGC- -5' |
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2754 | 5' | -51.5 | NC_001491.2 | + | 42512 | 0.69 | 0.937012 |
Target: 5'- uAGGGCUCCAgUCUGcccucUUGUGGCg- -3' miRNA: 3'- -UCUUGAGGUgAGACaac--AACACCGgc -5' |
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2754 | 5' | -51.5 | NC_001491.2 | + | 81401 | 0.73 | 0.77889 |
Target: 5'- cGGcGCUCCuucCUCUGggGUUGcaUGGCCGc -3' miRNA: 3'- -UCuUGAGGu--GAGACaaCAAC--ACCGGC- -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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