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
16548 3' -39.4 NC_004105.1 + 91487 0.71 1
Target:  5'- uCGCUGAUUAAUCAauUAAUAGAg--- -3'
miRNA:   3'- -GUGACUGAUUGGUauAUUAUCUaaua -5'
16548 3' -39.4 NC_004105.1 + 188538 0.67 1
Target:  5'- gUACUGAUUGAuugggaaaauCCAUccgGAUGGAUUAUa -3'
miRNA:   3'- -GUGACUGAUU----------GGUAua-UUAUCUAAUA- -5'
16548 3' -39.4 NC_004105.1 + 11530 0.72 1
Target:  5'- cCAUUGACgGACCAUAUuAUuGAUUGUg -3'
miRNA:   3'- -GUGACUGaUUGGUAUAuUAuCUAAUA- -5'
16548 3' -39.4 NC_004105.1 + 190582 1.08 0.178305
Target:  5'- uCACUGACUAACCAUAUAAUAGAUUAUg -3'
miRNA:   3'- -GUGACUGAUUGGUAUAUUAUCUAAUA- -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.