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
16912 3' -52.8 NC_004313.1 + 6705 0.69 0.606045
Target:  5'- cCGAUAGAacgcgccaGCUGgccgGUGCGGUaCGAGGg -3'
miRNA:   3'- -GCUGUCUga------CGACa---CAUGCCA-GCUCU- -5'
16912 3' -52.8 NC_004313.1 + 2583 0.71 0.495139
Target:  5'- gCGuCAGAgUGCUGgcagaGU-CGGUCGGGAu -3'
miRNA:   3'- -GCuGUCUgACGACa----CAuGCCAGCUCU- -5'
16912 3' -52.8 NC_004313.1 + 2458 1.1 0.001196
Target:  5'- cCGACAGACUGCUGUGUACGGUCGAGAu -3'
miRNA:   3'- -GCUGUCUGACGACACAUGCCAGCUCU- -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.