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
18012 3' -58 NC_004665.1 + 31262 0.68 0.350817
Target:  5'- uGUGCgUACCU-CGGUCCUCccACgagGCCc -3'
miRNA:   3'- uCACG-GUGGAuGCCAGGAG--UGa--CGGc -5'
18012 3' -58 NC_004665.1 + 1118 0.71 0.221537
Target:  5'- -aUGCCuugagcaacAUCUACGGUCCugcacUCGCUGCUGa -3'
miRNA:   3'- ucACGG---------UGGAUGCCAGG-----AGUGACGGC- -5'
18012 3' -58 NC_004665.1 + 24843 0.71 0.221537
Target:  5'- --aGCUGCUUACGGgCCUCGuCUGCCu -3'
miRNA:   3'- ucaCGGUGGAUGCCaGGAGU-GACGGc -5'
18012 3' -58 NC_004665.1 + 13599 1.08 0.00036
Target:  5'- gAGUGCCACCUACGGUCCUCACUGCCGu -3'
miRNA:   3'- -UCACGGUGGAUGCCAGGAGUGACGGC- -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.