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
22920 5' -49.1 NC_005137.2 + 16574 1.09 0.011357
Target:  5'- gCGAAGUGAGUGUUAUGGAUGUGCGCGc -3'
miRNA:   3'- -GCUUCACUCACAAUACCUACACGCGC- -5'
22920 5' -49.1 NC_005137.2 + 14130 0.69 0.981332
Target:  5'- -cGAGUGGGUGUU-UGGAUgGUGgaGCGg -3'
miRNA:   3'- gcUUCACUCACAAuACCUA-CACg-CGC- -5'
22920 5' -49.1 NC_005137.2 + 24484 0.69 0.983423
Target:  5'- aCGgcGUGcAGUGUU----GUGUGCGCGg -3'
miRNA:   3'- -GCuuCAC-UCACAAuaccUACACGCGC- -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.