miRNA display CGI


Results 1 - 20 of 90 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
23686 3' -55.4 NC_005261.1 + 1002 0.66 0.928819
Target:  5'- gACGggGGCGGggGGCGGGGggCGggUGGGc -3'
miRNA:   3'- -UGCagCCGCU--UCGUCUCuaGCa-GCCC- -5'
23686 3' -55.4 NC_005261.1 + 2608 0.66 0.928819
Target:  5'- cCGUCGGCG--GCGGGGc-CGcCGGGc -3'
miRNA:   3'- uGCAGCCGCuuCGUCUCuaGCaGCCC- -5'
23686 3' -55.4 NC_005261.1 + 11291 0.66 0.938762
Target:  5'- cCGuUCGcGCGucGCAGGGGagGUgGGGa -3'
miRNA:   3'- uGC-AGC-CGCuuCGUCUCUagCAgCCC- -5'
23686 3' -55.4 NC_005261.1 + 12765 0.7 0.771778
Target:  5'- uCGUaggCGGCGGuGGCGGGGGgcUCGUCGGc -3'
miRNA:   3'- uGCA---GCCGCU-UCGUCUCU--AGCAGCCc -5'
23686 3' -55.4 NC_005261.1 + 12809 0.73 0.58233
Target:  5'- gGCGUCGcugccguccuccGCGAAGgaAGAGuccUCGUCGGGg -3'
miRNA:   3'- -UGCAGC------------CGCUUCg-UCUCu--AGCAGCCC- -5'
23686 3' -55.4 NC_005261.1 + 13088 0.72 0.643294
Target:  5'- cCGUCGGCGGgcGGCGG-GcUCGgcUCGGGg -3'
miRNA:   3'- uGCAGCCGCU--UCGUCuCuAGC--AGCCC- -5'
23686 3' -55.4 NC_005261.1 + 13117 0.72 0.663627
Target:  5'- gGCGUCGGCGGccGCGGGGcgcguGUgGUCGGu -3'
miRNA:   3'- -UGCAGCCGCUu-CGUCUC-----UAgCAGCCc -5'
23686 3' -55.4 NC_005261.1 + 13286 0.68 0.857546
Target:  5'- uUGUUGGCGggGCGcAGGUgugCGaCGGGg -3'
miRNA:   3'- uGCAGCCGCuuCGUcUCUA---GCaGCCC- -5'
23686 3' -55.4 NC_005261.1 + 14082 0.83 0.177793
Target:  5'- cACGUCGGCGAAGCAcucGcGGUCGUCGaGGc -3'
miRNA:   3'- -UGCAGCCGCUUCGU---CuCUAGCAGC-CC- -5'
23686 3' -55.4 NC_005261.1 + 15024 0.78 0.33036
Target:  5'- uUGUCGGCGGgugccgggggcguAGCGGGGGggGUCGGGg -3'
miRNA:   3'- uGCAGCCGCU-------------UCGUCUCUagCAGCCC- -5'
23686 3' -55.4 NC_005261.1 + 16177 0.68 0.857546
Target:  5'- gGCG-CgGGCGuGGCGGGGGUgGgCGGGg -3'
miRNA:   3'- -UGCaG-CCGCuUCGUCUCUAgCaGCCC- -5'
23686 3' -55.4 NC_005261.1 + 18708 1.09 0.003431
Target:  5'- cACGUCGGCGAAGCAGAGAUCGUCGGGc -3'
miRNA:   3'- -UGCAGCCGCUUCGUCUCUAGCAGCCC- -5'
23686 3' -55.4 NC_005261.1 + 21673 0.66 0.912131
Target:  5'- uACGUgcucCGGCuGggGCucGAGcgCGUCGcGGg -3'
miRNA:   3'- -UGCA----GCCG-CuuCGu-CUCuaGCAGC-CC- -5'
23686 3' -55.4 NC_005261.1 + 23413 0.76 0.411633
Target:  5'- aACGUcaaCGGCGAGGCGcuGcgCGUCGGGg -3'
miRNA:   3'- -UGCA---GCCGCUUCGUcuCuaGCAGCCC- -5'
23686 3' -55.4 NC_005261.1 + 23625 0.66 0.928819
Target:  5'- cCGg-GGCGcGGCGGGGGUCGggCGGc -3'
miRNA:   3'- uGCagCCGCuUCGUCUCUAGCa-GCCc -5'
23686 3' -55.4 NC_005261.1 + 23774 0.66 0.923493
Target:  5'- gGCGggcCGGCuAGGguGGGcUCGcCGGGg -3'
miRNA:   3'- -UGCa--GCCGcUUCguCUCuAGCaGCCC- -5'
23686 3' -55.4 NC_005261.1 + 23831 0.66 0.923493
Target:  5'- gGCGggcCGGCuAGGguGGGcUCGcCGGGg -3'
miRNA:   3'- -UGCa--GCCGcUUCguCUCuAGCaGCCC- -5'
23686 3' -55.4 NC_005261.1 + 23942 0.66 0.933909
Target:  5'- uCG-CGGCG-GGUucGGGGUCGUCGGc -3'
miRNA:   3'- uGCaGCCGCuUCGu-CUCUAGCAGCCc -5'
23686 3' -55.4 NC_005261.1 + 24143 0.67 0.886614
Target:  5'- -gGUgGGCGggGCucaccuggcGGGAUCGUCGcaGGc -3'
miRNA:   3'- ugCAgCCGCuuCGu--------CUCUAGCAGC--CC- -5'
23686 3' -55.4 NC_005261.1 + 24189 0.84 0.160744
Target:  5'- uCGUCGGCGAGGCuccaGGAUCGUCGGcGg -3'
miRNA:   3'- uGCAGCCGCUUCGuc--UCUAGCAGCC-C- -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.