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
3186 3' -62.4 NC_001502.1 + 5577 0.7 0.020589
Target:  5'- uGCC-CCGGCuCGGgGCCAAgaacagauGGUCCCc -3'
miRNA:   3'- cCGGuGGCCG-GCUgCGGUU--------CCAGGGu -5'
3186 3' -62.4 NC_001502.1 + 2434 1.1 0.000005
Target:  5'- aGGCCACCGGCCGACGCCAAGGUCCCAg -3'
miRNA:   3'- -CCGGUGGCCGGCUGCGGUUCCAGGGU- -5'
3186 3' -62.4 NC_001502.1 + 3647 0.66 0.052162
Target:  5'- aGGCCAgCCGGCgUGGCaGUCcGGGagCCCGa -3'
miRNA:   3'- -CCGGU-GGCCG-GCUG-CGGuUCCa-GGGU- -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.