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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
28570 | 3' | -55.2 | NC_005946.1 | + | 97000 | 0.66 | 0.81653 |
Target: 5'- gGCGuuGcUGCUGcUGGGcAGGGCGUCu- -3' miRNA: 3'- aUGUggU-ACGAC-ACCC-UUCCGCAGuu -5' |
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28570 | 3' | -55.2 | NC_005946.1 | + | 102303 | 0.68 | 0.696158 |
Target: 5'- cACGCCGUGCa--GGGccccgcacgccAGGGCGUCAGa -3' miRNA: 3'- aUGUGGUACGacaCCC-----------UUCCGCAGUU- -5' |
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28570 | 3' | -55.2 | NC_005946.1 | + | 71775 | 0.69 | 0.653189 |
Target: 5'- gGCACgGUcCUGgugGGGAAGGUGUCu- -3' miRNA: 3'- aUGUGgUAcGACa--CCCUUCCGCAGuu -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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