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
7344 3' -54.7 NC_001900.1 + 9716 0.66 0.705129
Target:  5'- gACGUuCGGGUGGUUccgggccgaaGGCGAGuGggUgGa -3'
miRNA:   3'- -UGCAcGCCCAUCAG----------UCGCUC-CuuAgC- -5'
7344 3' -54.7 NC_001900.1 + 29963 0.72 0.380582
Target:  5'- gACGUGacCGGG--GUCAGCGAGGAAgcacCGa -3'
miRNA:   3'- -UGCAC--GCCCauCAGUCGCUCCUUa---GC- -5'
7344 3' -54.7 NC_001900.1 + 35144 1.09 0.000982
Target:  5'- cACGUGCGGGUAGUCAGCGAGGAAUCGg -3'
miRNA:   3'- -UGCACGCCCAUCAGUCGCUCCUUAGC- -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.