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
30447 3' -56.2 NC_006548.1 + 36791 0.66 0.547847
Target:  5'- gCUGGUGCGGCUCaGCAg-------- -3'
miRNA:   3'- gGACCACGCCGAGcCGUaucucguac -5'
30447 3' -56.2 NC_006548.1 + 1263 0.68 0.432407
Target:  5'- --cGGUGCGGCaggcUUGGCuuuGAGCGUc -3'
miRNA:   3'- ggaCCACGCCG----AGCCGuauCUCGUAc -5'
30447 3' -56.2 NC_006548.1 + 1960 0.68 0.42261
Target:  5'- aCCaGGccGUGGCUCGGCuuacucagGGGGUGUGa -3'
miRNA:   3'- -GGaCCa-CGCCGAGCCGua------UCUCGUAC- -5'
30447 3' -56.2 NC_006548.1 + 30242 0.71 0.271046
Target:  5'- aCCUGGUcGCGGCUgGGCAggccuacGAG-AUGg -3'
miRNA:   3'- -GGACCA-CGCCGAgCCGUau-----CUCgUAC- -5'
30447 3' -56.2 NC_006548.1 + 20140 1.1 0.000418
Target:  5'- aCCUGGUGCGGCUCGGCAUAGAGCAUGc -3'
miRNA:   3'- -GGACCACGCCGAGCCGUAUCUCGUAC- -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.