miRNA display CGI


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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
33016 5' -48.1 NC_007456.1 + 21805 0.66 0.941032
Target:  5'- ----aGAGCCGCGAGgauugcagaguaguuGucAGGCGugGUGu -3'
miRNA:   3'- gauaaCUUGGUGCUC---------------U--UCCGCugUAC- -5'
33016 5' -48.1 NC_007456.1 + 3740 0.71 0.72403
Target:  5'- uCUAUc--GCCGCGAGAAGGCcaGACAg- -3'
miRNA:   3'- -GAUAacuUGGUGCUCUUCCG--CUGUac -5'
33016 5' -48.1 NC_007456.1 + 8802 1.09 0.003843
Target:  5'- cCUAUUGAACCACGAGAAGGCGACAUGc -3'
miRNA:   3'- -GAUAACUUGGUGCUCUUCCGCUGUAC- -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.