miRNA display CGI


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Acc. No. Name Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
MIMAT0003440 rlcv-miR-rL1-11 -47.4 NC_006146.1 - 151476 0.67 0.997164
Target:  5'- gCCCUGg--CCUucgauAUCGAGUGUCu -3'
miRNA:   3'- -GGGGCauaGGA-----UAGCUCACAGu -5'
MIMAT0003440 rlcv-miR-rL1-11 -47.4 NC_006146.1 + 141206 0.74 0.882857
Target:  5'- cCUCCGUAUCCUAUCaAGUGUg- -3'
miRNA:   3'- -GGGGCAUAGGAUAGcUCACAgu -5'
MIMAT0003440 rlcv-miR-rL1-11 -47.4 NC_006146.1 - 141435 1.01 0.042357
Target:  5'- cCCCCGUAUCCUAUCGAGUGUCAc -3'
miRNA:   3'- -GGGGCAUAGGAUAGCUCACAGU- -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.