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
9800 5' -54.1 NC_002593.1 + 11083 1.09 0.00257
Target:  5'- cUACCGCAGUGGAAUCCGUUCGAGCUCa -3'
miRNA:   3'- -AUGGCGUCACCUUAGGCAAGCUCGAG- -5'
9800 5' -54.1 NC_002593.1 + 9889 0.66 0.882159
Target:  5'- gUACUGCAG-GGAAUCgggGUUCGcuguagugucggaAGCUCu -3'
miRNA:   3'- -AUGGCGUCaCCUUAGg--CAAGC-------------UCGAG- -5'
9800 5' -54.1 NC_002593.1 + 32255 0.66 0.897085
Target:  5'- cGCCGCGGUuGcGUUCGUUC-AGUUCa -3'
miRNA:   3'- aUGGCGUCAcCuUAGGCAAGcUCGAG- -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.