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
3233 3' -58.6 NC_001514.1 + 1388 0.66 0.115822
Target:  5'- --gUGCCCCCaGUggcaguuGCGGCUCCUGuuuuGCa -3'
miRNA:   3'- agaACGGGGG-CG-------CGUUGAGGACcu--CG- -5'
3233 3' -58.6 NC_001514.1 + 573 0.68 0.081654
Target:  5'- ----aCCCgaCCGCGagcCGACUCCUGGAGUu -3'
miRNA:   3'- agaacGGG--GGCGC---GUUGAGGACCUCG- -5'
3233 3' -58.6 NC_001514.1 + 6165 0.69 0.07653
Target:  5'- ---gGCCCCCGC-UGGCUCCcuGAGCg -3'
miRNA:   3'- agaaCGGGGGCGcGUUGAGGacCUCG- -5'
3233 3' -58.6 NC_001514.1 + 2414 1.11 0.000019
Target:  5'- aUCUUGCCCCCGCGCAACUCCUGGAGCc -3'
miRNA:   3'- -AGAACGGGGGCGCGUUGAGGACCUCG- -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.