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
21746 5' -58.5 NC_004813.1 + 42048 0.68 0.370092
Target:  5'- --cGGCGGUguGCGCCUGCggagucgUGCGGc -3'
miRNA:   3'- uauCUGCCGguCGUGGACGa------GUGCCa -5'
21746 5' -58.5 NC_004813.1 + 45466 0.69 0.320709
Target:  5'- --uGACGGCCAGUAUCUGg-CGCaGGUg -3'
miRNA:   3'- uauCUGCCGGUCGUGGACgaGUG-CCA- -5'
21746 5' -58.5 NC_004813.1 + 37358 1.04 0.000874
Target:  5'- cAUAGACGGCCAGCACCUGCUCACGGUc -3'
miRNA:   3'- -UAUCUGCCGGUCGUGGACGAGUGCCA- -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.