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
4070 5' -46.6 NC_001652.1 + 7518 0.7 0.46802
Target:  5'- uAACUGGGCGGAuUCggGCGucagagaugaAGCUCAGCa -3'
miRNA:   3'- -UUGACCUGUUUcAGa-CGU----------UUGAGUUG- -5'
4070 5' -46.6 NC_001652.1 + 8831 0.76 0.201827
Target:  5'- -cUUGGAUgauGAAGUCUGCAAugUUGACg -3'
miRNA:   3'- uuGACCUG---UUUCAGACGUUugAGUUG- -5'
4070 5' -46.6 NC_001652.1 + 9394 0.68 0.598131
Target:  5'- --aUGGACAAAGUCcuugGCccagGAGCUCAu- -3'
miRNA:   3'- uugACCUGUUUCAGa---CG----UUUGAGUug -5'
4070 5' -46.6 NC_001652.1 + 10208 1.08 0.000843
Target:  5'- aAACUGGACAAAGUCUGCAAACUCAACu -3'
miRNA:   3'- -UUGACCUGUUUCAGACGUUUGAGUUG- -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.