miRNA display CGI


Results 21 - 40 of 56 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
28166 3' -56.2 NC_005887.1 + 37490 0.7 0.321229
Target:  5'- --aGGGCG-GCgGUCAGUUCCuugAUCGCCg -3'
miRNA:   3'- guaUCCGCuCG-CGGUCGAGG---UAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 24995 0.7 0.337566
Target:  5'- gGUAGuugcCGAGCGUCAGCUCg--CGCCg -3'
miRNA:   3'- gUAUCc---GCUCGCGGUCGAGguaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 37097 0.7 0.337566
Target:  5'- --cGGGCGAGCacaGCCucGGCgaucgcgcggCCGUCGCCc -3'
miRNA:   3'- guaUCCGCUCG---CGG--UCGa---------GGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 11373 0.7 0.3545
Target:  5'- --cAGcGCGGGCGUCAGCgcagCCGgagCGCUg -3'
miRNA:   3'- guaUC-CGCUCGCGGUCGa---GGUa--GUGG- -5'
28166 3' -56.2 NC_005887.1 + 5871 0.68 0.472101
Target:  5'- --aAGGCGAGUggggcgacaGCUacgaccggaacgucgAGCUCgGUCGCCa -3'
miRNA:   3'- guaUCCGCUCG---------CGG---------------UCGAGgUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 14631 0.68 0.446761
Target:  5'- --aGGGCGcgcucacGGCaGCCGGCgcggugcugcCCGUCGCCg -3'
miRNA:   3'- guaUCCGC-------UCG-CGGUCGa---------GGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 8411 0.69 0.418341
Target:  5'- gCGUGGGcCGAGCacgaCCAGg-CUAUCGCCg -3'
miRNA:   3'- -GUAUCC-GCUCGc---GGUCgaGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 25516 0.69 0.408799
Target:  5'- ---cGGCGGGUGgCGGCauaaUCGUCGCCg -3'
miRNA:   3'- guauCCGCUCGCgGUCGa---GGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 27530 0.69 0.399393
Target:  5'- ---cGGCGGGCgGUCAugggcggcGCUCCAUCAUg -3'
miRNA:   3'- guauCCGCUCG-CGGU--------CGAGGUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 34062 0.7 0.363188
Target:  5'- ---cGGCGuGUGUCAGCcguuuuucUUCGUCACCg -3'
miRNA:   3'- guauCCGCuCGCGGUCG--------AGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 23442 0.67 0.499204
Target:  5'- ---cGGUGAGCGCUgcgGGCUgCCggUGCCg -3'
miRNA:   3'- guauCCGCUCGCGG---UCGA-GGuaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 26627 0.67 0.531301
Target:  5'- gCAgcuGGC--GCGUCAGCUCCuUCACg -3'
miRNA:   3'- -GUau-CCGcuCGCGGUCGAGGuAGUGg -5'
28166 3' -56.2 NC_005887.1 + 31438 0.66 0.55311
Target:  5'- --cAGGcCGGccgacgucaucuGCGCCGGCUgCAggugCACCg -3'
miRNA:   3'- guaUCC-GCU------------CGCGGUCGAgGUa---GUGG- -5'
28166 3' -56.2 NC_005887.1 + 9620 0.66 0.564116
Target:  5'- ----cGCGAGCGCCGcGCUaCCc-CGCCg -3'
miRNA:   3'- guaucCGCUCGCGGU-CGA-GGuaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 12326 0.66 0.575178
Target:  5'- --aGGGUG-GCGUCGGCgcgUUCGUCACg -3'
miRNA:   3'- guaUCCGCuCGCGGUCG---AGGUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 26241 0.66 0.575178
Target:  5'- ---cGGCGcAGCGCCAccggaaagcGUUUCAcCACCg -3'
miRNA:   3'- guauCCGC-UCGCGGU---------CGAGGUaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 40871 0.66 0.575178
Target:  5'- ----cGCGAGCGCC-GCacgCCGUCGgCg -3'
miRNA:   3'- guaucCGCUCGCGGuCGa--GGUAGUgG- -5'
28166 3' -56.2 NC_005887.1 + 1590 0.66 0.585177
Target:  5'- ---cGGCG-GCGCgCGGCgcgCCAacggcgaUCGCCu -3'
miRNA:   3'- guauCCGCuCGCG-GUCGa--GGU-------AGUGG- -5'
28166 3' -56.2 NC_005887.1 + 16741 0.66 0.58629
Target:  5'- --gAGuGCGAgaGCGCUGGCgaaGUCACCa -3'
miRNA:   3'- guaUC-CGCU--CGCGGUCGaggUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 14295 0.77 0.11453
Target:  5'- aCAUGGGUGgcgcAGCGCCuGCUCgAUCACg -3'
miRNA:   3'- -GUAUCCGC----UCGCGGuCGAGgUAGUGg -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.