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
1340 3' -52.4 NC_001335.1 + 6980 1.06 0.002169
Target:  5'- gGUAGAUGUACUGGCCCUGGUCAUCUAc -3'
miRNA:   3'- -CAUCUACAUGACCGGGACCAGUAGAU- -5'
1340 3' -52.4 NC_001335.1 + 29904 0.68 0.68636
Target:  5'- --cGAUGgucgACcagaucuUGGCCUUGGUCGUCUu -3'
miRNA:   3'- cauCUACa---UG-------ACCGGGACCAGUAGAu -5'
1340 3' -52.4 NC_001335.1 + 17198 0.68 0.687497
Target:  5'- -gGGAUGUGCggGGCCagaCUGGUCAc--- -3'
miRNA:   3'- caUCUACAUGa-CCGG---GACCAGUagau -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.