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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
9833 | 3' | -51.2 | NC_002617.1 | + | 3259 | 1.07 | 0.000461 |
Target: 5'- aGAAUUGGAGUGCCCCAAUUGUGCCAAg -3' miRNA: 3'- -CUUAACCUCACGGGGUUAACACGGUU- -5' |
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9833 | 3' | -51.2 | NC_002617.1 | + | 2727 | 0.68 | 0.356366 |
Target: 5'- --uUUGGA---UCCCGGUUGUGCCAAc -3' miRNA: 3'- cuuAACCUcacGGGGUUAACACGGUU- -5' |
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9833 | 3' | -51.2 | NC_002617.1 | + | 1564 | 0.78 | 0.079463 |
Target: 5'- gGAGUUGGGGgagGCCCCGAUUggggaGUGCCc- -3' miRNA: 3'- -CUUAACCUCa--CGGGGUUAA-----CACGGuu -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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