miRNA display CGI


Results 1 - 20 of 61 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
12342 5' -54.2 NC_003324.1 + 368 0.66 0.750886
Target:  5'- gGACAGGGUCucaGCGCGGCG-C-GGCu -3'
miRNA:   3'- -CUGUUCCGGuucCGCGUCGUaGaUCG- -5'
12342 5' -54.2 NC_003324.1 + 2081 0.67 0.663122
Target:  5'- gGACAAGGUCgAAGGUGCAuauaaccguGCGg--AGCa -3'
miRNA:   3'- -CUGUUCCGG-UUCCGCGU---------CGUagaUCG- -5'
12342 5' -54.2 NC_003324.1 + 2198 0.68 0.638392
Target:  5'- cACGGGGCCGAGGaaaaaccucaAGCAagUAGCg -3'
miRNA:   3'- cUGUUCCGGUUCCgcg-------UCGUagAUCG- -5'
12342 5' -54.2 NC_003324.1 + 5983 0.66 0.707624
Target:  5'- cGACugucGGGCCAucaAGGCGCAGgcCGUCa--- -3'
miRNA:   3'- -CUGu---UCCGGU---UCCGCGUC--GUAGaucg -5'
12342 5' -54.2 NC_003324.1 + 6222 0.84 0.063074
Target:  5'- --gAAGGCCGAGGCGCAGCAgc-AGCg -3'
miRNA:   3'- cugUUCCGGUUCCGCGUCGUagaUCG- -5'
12342 5' -54.2 NC_003324.1 + 7545 0.67 0.68548
Target:  5'- cGACGaaGGGCCAgcaAGGCGCAcGCcUCcGGa -3'
miRNA:   3'- -CUGU--UCCGGU---UCCGCGU-CGuAGaUCg -5'
12342 5' -54.2 NC_003324.1 + 10705 0.67 0.68548
Target:  5'- cGACAcGGaGCCAcGGC-CAGCGUUgGGCg -3'
miRNA:   3'- -CUGU-UC-CGGUuCCGcGUCGUAGaUCG- -5'
12342 5' -54.2 NC_003324.1 + 11658 0.72 0.387992
Target:  5'- cGGCAGGaGCCGcGGGaGCAGCAUC-GGCu -3'
miRNA:   3'- -CUGUUC-CGGU-UCCgCGUCGUAGaUCG- -5'
12342 5' -54.2 NC_003324.1 + 12938 0.66 0.74023
Target:  5'- -uCAAGGCgCuuGAGGCGCuGCAggaagAGCg -3'
miRNA:   3'- cuGUUCCG-G--UUCCGCGuCGUaga--UCG- -5'
12342 5' -54.2 NC_003324.1 + 14519 0.68 0.618131
Target:  5'- cGGCAGGGCguccgcgaCAAGGCGCuGGCG-CUcaaGGCc -3'
miRNA:   3'- -CUGUUCCG--------GUUCCGCG-UCGUaGA---UCG- -5'
12342 5' -54.2 NC_003324.1 + 14589 0.68 0.606889
Target:  5'- cGCAAgcGGCCGGcGGCGCAgGCGg-UAGCg -3'
miRNA:   3'- cUGUU--CCGGUU-CCGCGU-CGUagAUCG- -5'
12342 5' -54.2 NC_003324.1 + 14693 0.68 0.59567
Target:  5'- gGGCAGGGCuucCAAGGUGCGauGCAg--GGCu -3'
miRNA:   3'- -CUGUUCCG---GUUCCGCGU--CGUagaUCG- -5'
12342 5' -54.2 NC_003324.1 + 15466 0.71 0.465921
Target:  5'- gGGCGAGGCCAAGGCcgaggaUAGCGacgaCUGGUu -3'
miRNA:   3'- -CUGUUCCGGUUCCGc-----GUCGUa---GAUCG- -5'
12342 5' -54.2 NC_003324.1 + 15958 0.66 0.718587
Target:  5'- cGACAAGGCgGGGGCGuUGGCGaCgauaagauGCg -3'
miRNA:   3'- -CUGUUCCGgUUCCGC-GUCGUaGau------CG- -5'
12342 5' -54.2 NC_003324.1 + 18378 0.69 0.540239
Target:  5'- -cCAAGGCCGGGGCaGCGauugcccgcGCGUC-GGCc -3'
miRNA:   3'- cuGUUCCGGUUCCG-CGU---------CGUAGaUCG- -5'
12342 5' -54.2 NC_003324.1 + 19503 1.02 0.003446
Target:  5'- gGACAAGGCC-AGGCGCAGCAUCUAGCc -3'
miRNA:   3'- -CUGUUCCGGuUCCGCGUCGUAGAUCG- -5'
12342 5' -54.2 NC_003324.1 + 21101 0.66 0.728376
Target:  5'- cGACAAGcCCAAggauuucGGCGCGGcCAUCauuGCg -3'
miRNA:   3'- -CUGUUCcGGUU-------CCGCGUC-GUAGau-CG- -5'
12342 5' -54.2 NC_003324.1 + 21116 0.67 0.696585
Target:  5'- cACGucGGGCUGGcgcuuGCGCAGCAUCUcGGCc -3'
miRNA:   3'- cUGU--UCCGGUUc----CGCGUCGUAGA-UCG- -5'
12342 5' -54.2 NC_003324.1 + 21212 0.71 0.465921
Target:  5'- uGACGAGGCCGAGaugcuGCGCaAGCG-CcAGCc -3'
miRNA:   3'- -CUGUUCCGGUUC-----CGCG-UCGUaGaUCG- -5'
12342 5' -54.2 NC_003324.1 + 21366 0.7 0.507808
Target:  5'- cGGCGAacgcGGCCGAGaugaaaGCgGCAGCGUCgGGCa -3'
miRNA:   3'- -CUGUU----CCGGUUC------CG-CGUCGUAGaUCG- -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.