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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
12645 | 5' | -49.2 | NC_003345.1 | + | 32013 | 0.66 | 0.973809 |
Target: 5'- -uCUACGUccCUGCCGAG-GAACg--- -3' miRNA: 3'- ccGAUGCAa-GACGGCUCuCUUGaauu -5' |
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12645 | 5' | -49.2 | NC_003345.1 | + | 9827 | 0.68 | 0.931222 |
Target: 5'- cGCUucCGUUcCUGCCGAgcGAGAugUUAu -3' miRNA: 3'- cCGAu-GCAA-GACGGCU--CUCUugAAUu -5' |
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12645 | 5' | -49.2 | NC_003345.1 | + | 54198 | 1.09 | 0.005471 |
Target: 5'- cGGCUACGUUCUGCCGAGAGAACUUAAc -3' miRNA: 3'- -CCGAUGCAAGACGGCUCUCUUGAAUU- -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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