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
10214 3' -52.8 NC_002665.1 + 105029 0.66 0.914063
Target:  5'- uGGUGGuCCcgggggugGGuCAUCCCCugGUUCu -3'
miRNA:   3'- -UUACCuGGaa------CC-GUAGGGGugUAAGu -5'
10214 3' -52.8 NC_002665.1 + 108602 0.73 0.602447
Target:  5'- uGUGGAauCCaUGGCAUCCCC-CAgggUCAg -3'
miRNA:   3'- uUACCU--GGaACCGUAGGGGuGUa--AGU- -5'
10214 3' -52.8 NC_002665.1 + 102416 1.06 0.004695
Target:  5'- cAAUGGACCUUGGCAUCCCCACAUUCAu -3'
miRNA:   3'- -UUACCUGGAACCGUAGGGGUGUAAGU- -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.