miRNA display CGI


Results 1 - 20 of 22 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
10288 3' -52.3 NC_002687.1 + 78055 0.66 0.999053
Target:  5'- -aUUCGCGgCggCCGCAGUUcucgcgugcUCGAGa -3'
miRNA:   3'- gaAGGCGCgGuaGGCGUCAA---------AGUUCc -5'
10288 3' -52.3 NC_002687.1 + 103727 0.66 0.999053
Target:  5'- -gUCCuCGCCAUCUGCGGaggcagCAcGGa -3'
miRNA:   3'- gaAGGcGCGGUAGGCGUCaaa---GUuCC- -5'
10288 3' -52.3 NC_002687.1 + 171093 0.66 0.999017
Target:  5'- --aUCGUGaCCAUCCGCAGagacccggaGAGGa -3'
miRNA:   3'- gaaGGCGC-GGUAGGCGUCaaag-----UUCC- -5'
10288 3' -52.3 NC_002687.1 + 233977 0.66 0.999017
Target:  5'- uCUUCUGCGCUuuuugggcacgCCGCuuuacUUCGAGGa -3'
miRNA:   3'- -GAAGGCGCGGua---------GGCGuca--AAGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 85872 0.66 0.99886
Target:  5'- --gCCGCGCCGgcgggaCCaGCGGgucCAGGGa -3'
miRNA:   3'- gaaGGCGCGGUa-----GG-CGUCaaaGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 32067 0.66 0.99886
Target:  5'- --aCCGCGcCCAUCUguGCGGga--GAGGg -3'
miRNA:   3'- gaaGGCGC-GGUAGG--CGUCaaagUUCC- -5'
10288 3' -52.3 NC_002687.1 + 263177 0.66 0.998634
Target:  5'- --gCgGCGUCGUCCGCGGcuugugUCcAGGu -3'
miRNA:   3'- gaaGgCGCGGUAGGCGUCaa----AGuUCC- -5'
10288 3' -52.3 NC_002687.1 + 163981 0.66 0.998372
Target:  5'- -cUCCGUgucGCCAUCuuCGuCGGUgUCGAGGu -3'
miRNA:   3'- gaAGGCG---CGGUAG--GC-GUCAaAGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 27080 0.66 0.998372
Target:  5'- -cUCUGCcagGCCcUCCGCAG-UUCAcGGu -3'
miRNA:   3'- gaAGGCG---CGGuAGGCGUCaAAGUuCC- -5'
10288 3' -52.3 NC_002687.1 + 238469 0.67 0.996858
Target:  5'- -gUUCGUGCCGcCCGUAGUUgCGGGu -3'
miRNA:   3'- gaAGGCGCGGUaGGCGUCAAaGUUCc -5'
10288 3' -52.3 NC_002687.1 + 275583 0.67 0.996336
Target:  5'- cCUUCCGUGUUGUgCCGCuaGGUgcagCGGGGu -3'
miRNA:   3'- -GAAGGCGCGGUA-GGCG--UCAaa--GUUCC- -5'
10288 3' -52.3 NC_002687.1 + 38895 0.67 0.996336
Target:  5'- uCUUCCaggaggGCGCaaggUCGCGGUUaUCGAGGg -3'
miRNA:   3'- -GAAGG------CGCGgua-GGCGUCAA-AGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 157539 0.67 0.995746
Target:  5'- -cUCCGCGagugaaGCGGUUUCGGGGu -3'
miRNA:   3'- gaAGGCGCgguaggCGUCAAAGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 259039 0.68 0.993493
Target:  5'- aUUCCaCGCuCAUCCGCcgcgcgacgAGUU-CAAGGa -3'
miRNA:   3'- gAAGGcGCG-GUAGGCG---------UCAAaGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 77316 0.71 0.968251
Target:  5'- -gUCUGUGUCGUCCGUcuuGUUUCcGGGu -3'
miRNA:   3'- gaAGGCGCGGUAGGCGu--CAAAGuUCC- -5'
10288 3' -52.3 NC_002687.1 + 57351 0.73 0.899824
Target:  5'- -gUCCGUGCgCcgCCGaauGGUUUCAAGGu -3'
miRNA:   3'- gaAGGCGCG-GuaGGCg--UCAAAGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 209027 0.74 0.880182
Target:  5'- --cCUGUGUCGUCCGCAGggUCccuGGGg -3'
miRNA:   3'- gaaGGCGCGGUAGGCGUCaaAGu--UCC- -5'
10288 3' -52.3 NC_002687.1 + 153113 0.75 0.851108
Target:  5'- -cUCCGCGCCGUCuCGU----UCAAGGa -3'
miRNA:   3'- gaAGGCGCGGUAG-GCGucaaAGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 157826 0.75 0.850341
Target:  5'- gUUCUGCGCCAUCUacuggcugaagaaGCGGcagaagUUCAAGGg -3'
miRNA:   3'- gAAGGCGCGGUAGG-------------CGUCa-----AAGUUCC- -5'
10288 3' -52.3 NC_002687.1 + 104091 0.76 0.819049
Target:  5'- uUUCCGUGCUGccUCCGCAGauggCGAGGa -3'
miRNA:   3'- gAAGGCGCGGU--AGGCGUCaaa-GUUCC- -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.