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
22481 3' -52.4 NC_005066.1 + 50330 0.69 0.925101
Target:  5'- ---uGGuGCUAUCCUGAAaGGAUuugaGGCUCu -3'
miRNA:   3'- uuuuCC-CGAUAGGGCUU-CCUA----UCGGG- -5'
22481 3' -52.4 NC_005066.1 + 26014 0.72 0.786859
Target:  5'- uAAAGGGCUAaaaUCCGAAGGuuAUAGCgCg -3'
miRNA:   3'- uUUUCCCGAUa--GGGCUUCC--UAUCGgG- -5'
22481 3' -52.4 NC_005066.1 + 45479 0.86 0.168676
Target:  5'- ---uGGGCUAUCCUucGGGAUAGCCCu -3'
miRNA:   3'- uuuuCCCGAUAGGGcuUCCUAUCGGG- -5'
22481 3' -52.4 NC_005066.1 + 45289 1.11 0.004542
Target:  5'- aAAAAGGGCUAUCCCGAAGGAUAGCCCa -3'
miRNA:   3'- -UUUUCCCGAUAGGGCUUCCUAUCGGG- -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.