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
12455 5' -59.5 NC_003324.1 + 12211 0.7 0.316061
Target:  5'- uGUUGUCGGUGAaauucccGGCCGAG-GCCg--- -3'
miRNA:   3'- -CAGCGGCCACU-------CCGGCUCaCGGaacc -5'
12455 5' -59.5 NC_003324.1 + 17785 0.66 0.483241
Target:  5'- -aUGCCGGUGAuGCCGGcgaucugguagcGUGCCUcacGGc -3'
miRNA:   3'- caGCGGCCACUcCGGCU------------CACGGAa--CC- -5'
12455 5' -59.5 NC_003324.1 + 32107 1.09 0.000401
Target:  5'- cGUCGCCGGUGAGGCCGAGUGCCUUGGu -3'
miRNA:   3'- -CAGCGGCCACUCCGGCUCACGGAACC- -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.