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
MIMAT0000999 ebv-miR-BART1-5p -47.2 NC_007605.1 - 139406 1.01 0.041764
Target:  5'- cACAGCACGUCACUUCCACUAAGAc -3'
miRNA:   3'- -UGUCGUGCAGUGAAGGUGAUUCU- -5'
MIMAT0000999 ebv-miR-BART1-5p -47.2 NC_007605.1 - 97755 0.71 0.96875
Target:  5'- aACAGCACG-CAUgaugUCUACUGGGGa -3'
miRNA:   3'- -UGUCGUGCaGUGa---AGGUGAUUCU- -5'
MIMAT0000999 ebv-miR-BART1-5p -47.2 NC_007605.1 + 155563 0.68 0.995158
Target:  5'- aACGGCGCGUgACcuucUCCACcGAGAc -3'
miRNA:   3'- -UGUCGUGCAgUGa---AGGUGaUUCU- -5'
MIMAT0000999 ebv-miR-BART1-5p -47.2 NC_007605.1 + 152359 0.67 0.99759
Target:  5'- aGCAGCAggcuUGUCAUg-CCGCUGAGGa -3'
miRNA:   3'- -UGUCGU----GCAGUGaaGGUGAUUCU- -5'
MIMAT0000999 ebv-miR-BART1-5p -47.2 NC_007605.1 + 155419 0.67 0.99759
Target:  5'- aGCGGCGCGUgGCaUCCACg---- -3'
miRNA:   3'- -UGUCGUGCAgUGaAGGUGauucu -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.