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
4181 3' -42.5 NC_001664.1 + 46973 0.69 0.999996
Target:  5'- aGCGUGGAGAUguuugguagUUCAAUCgaUUCGg -3'
miRNA:   3'- -CGUACCUCUAaaa------AGGUUAGaaGAGU- -5'
4181 3' -42.5 NC_001664.1 + 50854 0.73 0.999502
Target:  5'- uCGUGGAGuacgUUUUCCAGgugUCUCAu -3'
miRNA:   3'- cGUACCUCua--AAAAGGUUagaAGAGU- -5'
4181 3' -42.5 NC_001664.1 + 16072 1.14 0.034521
Target:  5'- cGCAUGGAGAUUUUUCCAAUCUUCUCAu -3'
miRNA:   3'- -CGUACCUCUAAAAAGGUUAGAAGAGU- -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.