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
21923 5' -45.5 NC_004913.1 + 28720 1.11 0.007975
Target:  5'- aGACGCUUAACAUUAAUCUGAGGCUCAa -3'
miRNA:   3'- -CUGCGAAUUGUAAUUAGACUCCGAGU- -5'
21923 5' -45.5 NC_004913.1 + 39497 0.76 0.725277
Target:  5'- aACGCUUAuuACAUUcagGAUCgucuUGAGGCUCAg -3'
miRNA:   3'- cUGCGAAU--UGUAA---UUAG----ACUCCGAGU- -5'
21923 5' -45.5 NC_004913.1 + 28666 0.74 0.851252
Target:  5'- gGACGCgUAAUGUUAA-CUGGGGCUUu -3'
miRNA:   3'- -CUGCGaAUUGUAAUUaGACUCCGAGu -5'
21923 5' -45.5 NC_004913.1 + 59827 0.67 0.992352
Target:  5'- cGACGUUcAACGaUGGUgaaUGAGGCUCu -3'
miRNA:   3'- -CUGCGAaUUGUaAUUAg--ACUCCGAGu -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.