miRNA display CGI


Results 1 - 12 of 12 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
22473 3' -54.3 NC_005066.1 + 146773 0.66 0.955872
Target:  5'- -cGAGCGGCaGCacua-CCGCCAGCc- -3'
miRNA:   3'- uaUUUGCCG-CGauuagGGCGGUCGcc -5'
22473 3' -54.3 NC_005066.1 + 66793 0.66 0.955872
Target:  5'- --uAAUGGUGaCUGGUCCCGUaauuGUGGu -3'
miRNA:   3'- uauUUGCCGC-GAUUAGGGCGgu--CGCC- -5'
22473 3' -54.3 NC_005066.1 + 40517 0.66 0.951882
Target:  5'- uUAAGCGGUGaucaUAGUCauuaGCCAGCa- -3'
miRNA:   3'- uAUUUGCCGCg---AUUAGgg--CGGUCGcc -5'
22473 3' -54.3 NC_005066.1 + 86949 0.67 0.938491
Target:  5'- cAUGAGCGGgGCUAAcUUCCuCCAGUacGGu -3'
miRNA:   3'- -UAUUUGCCgCGAUU-AGGGcGGUCG--CC- -5'
22473 3' -54.3 NC_005066.1 + 44544 0.67 0.92292
Target:  5'- -cGAACGGUGCacaauaucuaUGGUCCgauuucUGCCAGCGu -3'
miRNA:   3'- uaUUUGCCGCG----------AUUAGG------GCGGUCGCc -5'
22473 3' -54.3 NC_005066.1 + 80996 0.67 0.911319
Target:  5'- uGUAAGCGGUGCUGAcggUuuGCgCGGUGa -3'
miRNA:   3'- -UAUUUGCCGCGAUUa--GggCG-GUCGCc -5'
22473 3' -54.3 NC_005066.1 + 45830 0.69 0.87081
Target:  5'- --uAACGGUGCUA---UCGCUGGCGGu -3'
miRNA:   3'- uauUUGCCGCGAUuagGGCGGUCGCC- -5'
22473 3' -54.3 NC_005066.1 + 109750 0.7 0.822478
Target:  5'- uUGAAgGGCGUagcgaugcauuUGGUCCCGCCAGa-- -3'
miRNA:   3'- uAUUUgCCGCG-----------AUUAGGGCGGUCgcc -5'
22473 3' -54.3 NC_005066.1 + 126356 0.7 0.786625
Target:  5'- uUAAACGGCGggaaaUAAUCCCGCCuauauuuuGGCu- -3'
miRNA:   3'- uAUUUGCCGCg----AUUAGGGCGG--------UCGcc -5'
22473 3' -54.3 NC_005066.1 + 129455 0.72 0.698572
Target:  5'- aAUAAGCGGgGCUAGUucCCCGCCuuuugucguuGGgGGu -3'
miRNA:   3'- -UAUUUGCCgCGAUUA--GGGCGG----------UCgCC- -5'
22473 3' -54.3 NC_005066.1 + 118216 0.75 0.514603
Target:  5'- ---cGCGGCGCUGGUa--GCCAGUGGa -3'
miRNA:   3'- uauuUGCCGCGAUUAgggCGGUCGCC- -5'
22473 3' -54.3 NC_005066.1 + 82642 1.08 0.004825
Target:  5'- cAUAAACGGCGCUAAUCCCGCCAGCGGu -3'
miRNA:   3'- -UAUUUGCCGCGAUUAGGGCGGUCGCC- -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.