miRNA display CGI


Results 1 - 6 of 6 are showing below:
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Acc. No. Name Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
MIMAT0002188 kshv-miR-K12-6-5p -48.5 NC_003409.1 - 23129 0.66 0.989414
Target:  5'- aCCGcaaGUGGAUUuGGUGCUGUUa- -3'
miRNA:   3'- -GGC---UACCUAAuCCACGACGAcc -5'
MIMAT0002188 kshv-miR-K12-6-5p -48.5 NC_003409.1 + 27256 0.73 0.824113
Target:  5'- -gGAcGGGcggUGGGUGCUGCUGGa -3'
miRNA:   3'- ggCUaCCUa--AUCCACGACGACC- -5'
MIMAT0002188 kshv-miR-K12-6-5p -48.5 NC_003409.1 - 116460 0.69 0.960556
Target:  5'- aUCGGUGGAUgGGGUGCgaagGCccgGGa -3'
miRNA:   3'- -GGCUACCUAaUCCACGa---CGa--CC- -5'
MIMAT0002188 kshv-miR-K12-6-5p -48.5 NC_003409.1 + 120675 1.02 0.020334
Target:  5'- gCCGAUGGAUUAGGUGCUGCUGGa -3'
miRNA:   3'- -GGCUACCUAAUCCACGACGACC- -5'
MIMAT0002188 kshv-miR-K12-6-5p -48.5 NC_003409.1 + 121726 0.66 0.992089
Target:  5'- aCGA-GGGUUgcaggaaacAGGUGCUGCcGGg -3'
miRNA:   3'- gGCUaCCUAA---------UCCACGACGaCC- -5'
MIMAT0002188 kshv-miR-K12-6-5p -48.5 NC_003409.1 + 126866 0.74 0.774203
Target:  5'- gCCGGUGGAgguaaAGGUGUUGCgGGa -3'
miRNA:   3'- -GGCUACCUaa---UCCACGACGaCC- -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.