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
12425 3' -53 NC_003324.1 + 9766 1.07 0.002119
Target:  5'- cAAUGGGAUGUAUGCGCGUAACGGCCAg -3'
miRNA:   3'- -UUACCCUACAUACGCGCAUUGCCGGU- -5'
12425 3' -53 NC_003324.1 + 19620 0.67 0.734621
Target:  5'- --cGGcGAguaUAUGCGCGUGaaGCGGCUg -3'
miRNA:   3'- uuaCC-CUac-AUACGCGCAU--UGCCGGu -5'
12425 3' -53 NC_003324.1 + 31620 0.71 0.522332
Target:  5'- --cGGGc-----GCGCGUGGCGGCCAu -3'
miRNA:   3'- uuaCCCuacauaCGCGCAUUGCCGGU- -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.