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
8653 3' -41.4 NC_002229.2 + 168765 1.13 0.05725
Target:  5'- aGAUAACAUUUUAGCUACUCUAUGCGGc -3'
miRNA:   3'- -CUAUUGUAAAAUCGAUGAGAUACGCC- -5'
8653 3' -41.4 NC_002229.2 + 143849 1.13 0.05725
Target:  5'- aGAUAACAUUUUAGCUACUCUAUGCGGc -3'
miRNA:   3'- -CUAUUGUAAAAUCGAUGAGAUACGCC- -5'
8653 3' -41.4 NC_002229.2 + 100393 0.68 1
Target:  5'- uAUAACAUgccaaAGCUGCUgcacAUGCGGa -3'
miRNA:   3'- cUAUUGUAaaa--UCGAUGAga--UACGCC- -5'
8653 3' -41.4 NC_002229.2 + 71519 0.67 1
Target:  5'- cGUGGCAaa--AGCUGCUgCUAcaguUGCGGa -3'
miRNA:   3'- cUAUUGUaaaaUCGAUGA-GAU----ACGCC- -5'
8653 3' -41.4 NC_002229.2 + 85873 0.66 1
Target:  5'- cGAUGACAagUUUGGUUAauCUCgguUGUGGc -3'
miRNA:   3'- -CUAUUGUa-AAAUCGAU--GAGau-ACGCC- -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.