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
10633 3' -55.6 NC_002702.1 + 12250 0.69 0.35105
Target:  5'- --gUGGGAAGCCUGgaUCCUcuguuuguGCCGCCGc -3'
miRNA:   3'- ugaACUCUUUGGAC--AGGG--------CGGCGGUc -5'
10633 3' -55.6 NC_002702.1 + 17408 0.68 0.406297
Target:  5'- -gUUGAGAAGCCUGaCCUGCCaacacuCCAa -3'
miRNA:   3'- ugAACUCUUUGGACaGGGCGGc-----GGUc -5'
10633 3' -55.6 NC_002702.1 + 12133 1.08 0.000529
Target:  5'- aACUUGAGAAACCUGUCCCGCCGCCAGu -3'
miRNA:   3'- -UGAACUCUUUGGACAGGGCGGCGGUC- -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.