miRNA display CGI


Results 1 - 20 of 20 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
12877 3' -54.3 NC_003387.1 + 50745 0.66 0.798277
Target:  5'- gCCGUCGcGuuucAGGUCAagcuGGCGCuGCCCg- -3'
miRNA:   3'- -GGCAGCaCu---UUCAGU----CUGCG-CGGGac -5'
12877 3' -54.3 NC_003387.1 + 49924 0.66 0.798277
Target:  5'- gCGUCGccGaAAAGUCAGcAaaCGCCCUGa -3'
miRNA:   3'- gGCAGCa-C-UUUCAGUC-UgcGCGGGAC- -5'
12877 3' -54.3 NC_003387.1 + 48875 0.66 0.798277
Target:  5'- -aGcCG-GAucGUCGGcgccgccuaccGCGCGCCCUGa -3'
miRNA:   3'- ggCaGCaCUuuCAGUC-----------UGCGCGGGAC- -5'
12877 3' -54.3 NC_003387.1 + 41420 0.66 0.798277
Target:  5'- -aGUCGcUGuucgagcuacccGAGGUCAccGGCGCGgCCCUGa -3'
miRNA:   3'- ggCAGC-AC------------UUUCAGU--CUGCGC-GGGAC- -5'
12877 3' -54.3 NC_003387.1 + 44872 0.66 0.78854
Target:  5'- gCCGUCG-GggGcGUCGGcgauuccgccuGCGCGCCg-- -3'
miRNA:   3'- -GGCAGCaCuuU-CAGUC-----------UGCGCGGgac -5'
12877 3' -54.3 NC_003387.1 + 8929 0.66 0.778641
Target:  5'- cUCGUCGaGGAAG-CGGGCGaCGCcgguCCUGg -3'
miRNA:   3'- -GGCAGCaCUUUCaGUCUGC-GCG----GGAC- -5'
12877 3' -54.3 NC_003387.1 + 33794 0.66 0.758398
Target:  5'- aCCGUCGcGAGaagcugcguagGGUCGaGCGCGCCg-- -3'
miRNA:   3'- -GGCAGCaCUU-----------UCAGUcUGCGCGGgac -5'
12877 3' -54.3 NC_003387.1 + 28677 0.66 0.757372
Target:  5'- aCCGUCGUGAccGUgauucacggccacCAGugGCgcaaagggcagGCCCUc -3'
miRNA:   3'- -GGCAGCACUuuCA-------------GUCugCG-----------CGGGAc -5'
12877 3' -54.3 NC_003387.1 + 37902 0.67 0.73764
Target:  5'- uCgGUCGUGAucGU---GCGCGCCgUGg -3'
miRNA:   3'- -GgCAGCACUuuCAgucUGCGCGGgAC- -5'
12877 3' -54.3 NC_003387.1 + 26808 0.67 0.694944
Target:  5'- gCCG-CGcUGguGGUCGGugagcGCGcCGCCCUGg -3'
miRNA:   3'- -GGCaGC-ACuuUCAGUC-----UGC-GCGGGAC- -5'
12877 3' -54.3 NC_003387.1 + 13008 0.68 0.673186
Target:  5'- gUCGUCGggcAAGGUC-GACaGCGCCCg- -3'
miRNA:   3'- -GGCAGCac-UUUCAGuCUG-CGCGGGac -5'
12877 3' -54.3 NC_003387.1 + 34287 0.68 0.651274
Target:  5'- cCUGUCG-GAAuggugaggauGGUCAGuuGCGCGCCUUu -3'
miRNA:   3'- -GGCAGCaCUU----------UCAGUC--UGCGCGGGAc -5'
12877 3' -54.3 NC_003387.1 + 37269 0.68 0.640286
Target:  5'- cCCG-CGUGgcGGUCAaggcgccuGGCGCGCUCg- -3'
miRNA:   3'- -GGCaGCACuuUCAGU--------CUGCGCGGGac -5'
12877 3' -54.3 NC_003387.1 + 18338 0.69 0.574541
Target:  5'- gCCGUCGUGcccgccGGUCAGAcCGCGCa--- -3'
miRNA:   3'- -GGCAGCACuu----UCAGUCU-GCGCGggac -5'
12877 3' -54.3 NC_003387.1 + 38216 0.7 0.563698
Target:  5'- cCCGUCGggucGAucGaCAG-CGCGCCCUu -3'
miRNA:   3'- -GGCAGCa---CUuuCaGUCuGCGCGGGAc -5'
12877 3' -54.3 NC_003387.1 + 3037 0.7 0.531531
Target:  5'- cCCGagGUGAAGGcgCAGGCGUucccGCCCg- -3'
miRNA:   3'- -GGCagCACUUUCa-GUCUGCG----CGGGac -5'
12877 3' -54.3 NC_003387.1 + 39237 0.7 0.520952
Target:  5'- cCCGcCGgGGcuGUCGGugGUGCCCUc -3'
miRNA:   3'- -GGCaGCaCUuuCAGUCugCGCGGGAc -5'
12877 3' -54.3 NC_003387.1 + 41775 0.7 0.520952
Target:  5'- cCCGgCG-GAAAGUCucAGAgucgacCGCGCCCUGc -3'
miRNA:   3'- -GGCaGCaCUUUCAG--UCU------GCGCGGGAC- -5'
12877 3' -54.3 NC_003387.1 + 42715 0.75 0.308555
Target:  5'- gUCGUCGUcgcccggccgcggGAAcgGGUCGGGUGCGCCCUGc -3'
miRNA:   3'- -GGCAGCA-------------CUU--UCAGUCUGCGCGGGAC- -5'
12877 3' -54.3 NC_003387.1 + 1579 1.11 0.000966
Target:  5'- cCCGUCGUGAAAGUCAGACGCGCCCUGg -3'
miRNA:   3'- -GGCAGCACUUUCAGUCUGCGCGGGAC- -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.