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
1170 3' -46.4 NC_001132.2 + 55769 0.67 0.999923
Target:  5'- -uGUACGG-AUAAguUAGUGGUGuUGUCCc -3'
miRNA:   3'- ucUAUGCUgUAUU--AUCGCCAC-ACAGG- -5'
1170 3' -46.4 NC_001132.2 + 81973 0.66 0.999983
Target:  5'- -uAUACGuCAUuAUAGCGGUcgucGUGUgCg -3'
miRNA:   3'- ucUAUGCuGUAuUAUCGCCA----CACAgG- -5'
1170 3' -46.4 NC_001132.2 + 142439 1.15 0.012714
Target:  5'- aAGAUACGACAUAAUAGCGGUGUGUCCg -3'
miRNA:   3'- -UCUAUGCUGUAUUAUCGCCACACAGG- -5'
1170 3' -46.4 NC_001132.2 + 155144 0.7 0.996764
Target:  5'- cGGUA-GACGUGGUucguGuCGGUGUGUUCg -3'
miRNA:   3'- uCUAUgCUGUAUUAu---C-GCCACACAGG- -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.