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
16975 5' -56.7 NC_004323.1 + 33943 0.66 0.845799
Target:  5'- cGUCGAUcgacACGGCUgcaagguguucacgGUGcGGCGCuACAAu -3'
miRNA:   3'- aCAGCUA----UGCCGG--------------CACuCCGCG-UGUU- -5'
16975 5' -56.7 NC_004323.1 + 87943 0.66 0.840053
Target:  5'- -aUCGAUGCGGCC---AGGuCGCugGAu -3'
miRNA:   3'- acAGCUAUGCCGGcacUCC-GCGugUU- -5'
16975 5' -56.7 NC_004323.1 + 99123 1.06 0.003098
Target:  5'- uUGUCGAUACGGCCGUGAGGCGCACAAc -3'
miRNA:   3'- -ACAGCUAUGCCGGCACUCCGCGUGUU- -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.