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
12256 5' -56.4 NC_003309.1 + 37927 0.67 0.534722
Target:  5'- aAGCGC---GGCCuuUCGGCG-GGGCg -3'
miRNA:   3'- gUCGCGuacCCGGuuAGCCGCaUCUG- -5'
12256 5' -56.4 NC_003309.1 + 44179 0.68 0.51345
Target:  5'- gCGGCGCGcu-GCCGcUCGGCGUAcgcGACg -3'
miRNA:   3'- -GUCGCGUaccCGGUuAGCCGCAU---CUG- -5'
12256 5' -56.4 NC_003309.1 + 43579 0.69 0.451944
Target:  5'- gAGCGCA-GGccCCAGUaCGGCGgcGACg -3'
miRNA:   3'- gUCGCGUaCCc-GGUUA-GCCGCauCUG- -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.