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
16985 3' -55.2 NC_004323.1 + 3895 0.66 0.884807
Target:  5'- aUUGG-GC-AGCCGCCGCccuucuuaGCCAGAc -3'
miRNA:   3'- aGACCuCGaUUGGCGGCGa-------CGGUUUu -5'
16985 3' -55.2 NC_004323.1 + 85956 0.66 0.869956
Target:  5'- --cGGAcCUcGCCGCCGC-GCCAAc- -3'
miRNA:   3'- agaCCUcGAuUGGCGGCGaCGGUUuu -5'
16985 3' -55.2 NC_004323.1 + 107754 1.07 0.003162
Target:  5'- aUCUGGAGCUAACCGCCGCUGCCAAAAu -3'
miRNA:   3'- -AGACCUCGAUUGGCGGCGACGGUUUU- -5'
16985 3' -55.2 NC_004323.1 + 123573 0.67 0.820108
Target:  5'- cUCUGuuGCUGACCGUCGaacaUGCCu--- -3'
miRNA:   3'- -AGACcuCGAUUGGCGGCg---ACGGuuuu -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.