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
3148 3' -55 NC_001499.1 + 3345 1.12 0.000016
Target:  5'- aGUACAGCACUGUGGCUGGCCAUCUGCu -3'
miRNA:   3'- -CAUGUCGUGACACCGACCGGUAGACG- -5'
3148 3' -55 NC_001499.1 + 3505 0.74 0.03001
Target:  5'- -gGCAGCuggcccacuggagGCUGUGGCagGGCagAUCUGCa -3'
miRNA:   3'- caUGUCG-------------UGACACCGa-CCGg-UAGACG- -5'
3148 3' -55 NC_001499.1 + 2639 0.7 0.067935
Target:  5'- uUugGGagucaaGCUGggagGGCUGGCUuUCUGCu -3'
miRNA:   3'- cAugUCg-----UGACa---CCGACCGGuAGACG- -5'
3148 3' -55 NC_001499.1 + 3330 0.67 0.102965
Target:  5'- aGUGCuGUACUGgaGGCUGGCaagaacCUGUa -3'
miRNA:   3'- -CAUGuCGUGACa-CCGACCGgua---GACG- -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.