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
MIMAT0001566 mghv-miR-M1-3 -49.4 NC_001826.1 - 816 1.02 0.013887
Target:  5'- aAAGCGCAACUCCUGCUCACCUCc -3'
miRNA:   3'- -UUCGCGUUGAGGACGAGUGGAG- -5'
MIMAT0001566 mghv-miR-M1-3 -49.4 NC_001826.1 + 88556 0.69 0.879801
Target:  5'- cAGUGCAugUCCUGgaCAUCUUc -3'
miRNA:   3'- uUCGCGUugAGGACgaGUGGAG- -5'
MIMAT0001566 mghv-miR-M1-3 -49.4 NC_001826.1 - 47356 0.68 0.934332
Target:  5'- aGAGCGCAaucACUgCCUGCccuugcuaUCGCCUg -3'
miRNA:   3'- -UUCGCGU---UGA-GGACG--------AGUGGAg -5'
MIMAT0001566 mghv-miR-M1-3 -49.4 NC_001826.1 - 36497 0.67 0.94495
Target:  5'- uGGGCGUgagcuGACUagUCUGCUCcACCUCa -3'
miRNA:   3'- -UUCGCG-----UUGA--GGACGAG-UGGAG- -5'
MIMAT0001566 mghv-miR-M1-3 -49.4 NC_001826.1 - 26009 0.67 0.958652
Target:  5'- -uGCgGCAACUCUgccuUGC-CGCCUCg -3'
miRNA:   3'- uuCG-CGUUGAGG----ACGaGUGGAG- -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.