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
1080 3' -52.4 NC_000929.1 + 16976 1.1 0.00082
Target:  5'- uGAAAUCCGGGCGCUGGGGUUUAUGACg -3'
miRNA:   3'- -CUUUAGGCCCGCGACCCCAAAUACUG- -5'
1080 3' -52.4 NC_000929.1 + 9743 0.72 0.383428
Target:  5'- --cAUCUGGGCGCUGGccGGaUUGcUGACg -3'
miRNA:   3'- cuuUAGGCCCGCGACC--CCaAAU-ACUG- -5'
1080 3' -52.4 NC_000929.1 + 20433 0.68 0.608859
Target:  5'- uGAAAgCCGucagugcGGCGCUGGGGgaaccgGUGAg -3'
miRNA:   3'- -CUUUaGGC-------CCGCGACCCCaaa---UACUg -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.