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
30591 3' -55.5 NC_006549.1 + 55972 0.66 0.908182
Target:  5'- -aCGUCAGCCCggUGUCUGGcugcgcGGCCUUUa -3'
miRNA:   3'- ccGCAGUCGGG--GCAGACUu-----UUGGGAG- -5'
30591 3' -55.5 NC_006549.1 + 108252 0.68 0.840393
Target:  5'- uGGUGUCauuuGGCCCCGgaagucgucuuugCUGAAAuuuccacgGCUCUCu -3'
miRNA:   3'- -CCGCAG----UCGGGGCa------------GACUUU--------UGGGAG- -5'
30591 3' -55.5 NC_006549.1 + 42143 1.11 0.002106
Target:  5'- uGGCGUCAGCCCCGUCUGAAAACCCUCu -3'
miRNA:   3'- -CCGCAGUCGGGGCAGACUUUUGGGAG- -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.