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
7280 5' -60 NC_001900.1 + 9595 0.66 0.373784
Target:  5'- uGGGGGUCagGGCGGCuGAucgugauguacgaccGGCCGugGAc -3'
miRNA:   3'- -UCCCCGGa-CUGCCG-UU---------------CCGGUugCUu -5'
7280 5' -60 NC_001900.1 + 25545 0.7 0.219279
Target:  5'- uGGGaGCCacgcUGGCGGCucAGGCCGguGCGAc -3'
miRNA:   3'- uCCC-CGG----ACUGCCGu-UCCGGU--UGCUu -5'
7280 5' -60 NC_001900.1 + 30776 0.7 0.202593
Target:  5'- cGGGGCCgGugGGUucGGCCAcucGCuGGAg -3'
miRNA:   3'- uCCCCGGaCugCCGuuCCGGU---UG-CUU- -5'
7280 5' -60 NC_001900.1 + 29825 0.71 0.177233
Target:  5'- -cGGGUCUacGGCGGUggGGCCAACa-- -3'
miRNA:   3'- ucCCCGGA--CUGCCGuuCCGGUUGcuu -5'
7280 5' -60 NC_001900.1 + 8060 1.06 0.000411
Target:  5'- cAGGGGCCUGACGGCAAGGCCAACGAAg -3'
miRNA:   3'- -UCCCCGGACUGCCGUUCCGGUUGCUU- -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.