miRNA display CGI


Results 1 - 20 of 30 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
12483 3' -58.4 NC_003324.1 + 411 0.69 0.420222
Target:  5'- gCCUauugGGCuGGCGC--AUCCCGgaGCCCg -3'
miRNA:   3'- -GGGg---CUG-CCGUGaaUAGGGCgaCGGG- -5'
12483 3' -58.4 NC_003324.1 + 3077 0.68 0.477065
Target:  5'- -gCCGcACGGCGC---UCCCGCUcuuGCCa -3'
miRNA:   3'- ggGGC-UGCCGUGaauAGGGCGA---CGGg -5'
12483 3' -58.4 NC_003324.1 + 4286 0.66 0.568651
Target:  5'- uCCgCCGGUGGCAagaUGUCCCGCaagcGCaCCg -3'
miRNA:   3'- -GG-GGCUGCCGUga-AUAGGGCGa---CG-GG- -5'
12483 3' -58.4 NC_003324.1 + 7408 0.67 0.528214
Target:  5'- gCUCGACcaauggGGCACggagauuggcaaggGUgCUGCUGCCCg -3'
miRNA:   3'- gGGGCUG------CCGUGaa------------UAgGGCGACGGG- -5'
12483 3' -58.4 NC_003324.1 + 7864 0.69 0.429413
Target:  5'- gCCgCGGCGGCAaag--CCCGUUGCg- -3'
miRNA:   3'- -GGgGCUGCCGUgaauaGGGCGACGgg -5'
12483 3' -58.4 NC_003324.1 + 8899 0.7 0.359363
Target:  5'- uCCCCacagcgGGCGGCAgUgauugguUUCCGCUGaCCCu -3'
miRNA:   3'- -GGGG------CUGCCGUgAau-----AGGGCGAC-GGG- -5'
12483 3' -58.4 NC_003324.1 + 9108 0.71 0.304936
Target:  5'- cUCCCGGCGGCAaacgcCUUugcggugguUCCuUGCUGUCCa -3'
miRNA:   3'- -GGGGCUGCCGU-----GAAu--------AGG-GCGACGGG- -5'
12483 3' -58.4 NC_003324.1 + 11560 0.74 0.204752
Target:  5'- gUCUCGACGGCGCUcuugaCCGCaaugUGCCCc -3'
miRNA:   3'- -GGGGCUGCCGUGAauag-GGCG----ACGGG- -5'
12483 3' -58.4 NC_003324.1 + 12897 0.66 0.607693
Target:  5'- cCCCUuGCGGCGCgUcgaaacgcuggaugGUUuuGCUGCCa -3'
miRNA:   3'- -GGGGcUGCCGUGaA--------------UAGggCGACGGg -5'
12483 3' -58.4 NC_003324.1 + 15629 0.67 0.53746
Target:  5'- aCCCGGuCGGCGCUU-UCCaUGUcGCCg -3'
miRNA:   3'- gGGGCU-GCCGUGAAuAGG-GCGaCGGg -5'
12483 3' -58.4 NC_003324.1 + 18288 0.66 0.610876
Target:  5'- -gCCGAC-GCGCgggcaaUCGCUGCCCc -3'
miRNA:   3'- ggGGCUGcCGUGaauag-GGCGACGGG- -5'
12483 3' -58.4 NC_003324.1 + 20670 0.7 0.365999
Target:  5'- --gCGACGGCGCcacagcaccggAUCCCGCUcGCCa -3'
miRNA:   3'- gggGCUGCCGUGaa---------UAGGGCGA-CGGg -5'
12483 3' -58.4 NC_003324.1 + 21458 0.66 0.579153
Target:  5'- aUCCGGaucuuCGGCAUagagCUCGUUGCCCu -3'
miRNA:   3'- gGGGCU-----GCCGUGaauaGGGCGACGGG- -5'
12483 3' -58.4 NC_003324.1 + 24490 0.72 0.27008
Target:  5'- gCCCGACGcGCAgUgcauaUCCGCaUGCCCg -3'
miRNA:   3'- gGGGCUGC-CGUgAaua--GGGCG-ACGGG- -5'
12483 3' -58.4 NC_003324.1 + 24668 0.66 0.589697
Target:  5'- gCCCCGAUGauccuGCGCUggucgCCCGCaGCg- -3'
miRNA:   3'- -GGGGCUGC-----CGUGAaua--GGGCGaCGgg -5'
12483 3' -58.4 NC_003324.1 + 26136 0.69 0.402202
Target:  5'- aUCUCGACcGUuCUcGUCCCGCUGCUg -3'
miRNA:   3'- -GGGGCUGcCGuGAaUAGGGCGACGGg -5'
12483 3' -58.4 NC_003324.1 + 28356 0.67 0.547797
Target:  5'- gCCCGGaacaucguCGGC-CUUGUCCCaaaGCUccaacggauaccGCCCa -3'
miRNA:   3'- gGGGCU--------GCCGuGAAUAGGG---CGA------------CGGG- -5'
12483 3' -58.4 NC_003324.1 + 28589 0.66 0.568651
Target:  5'- uUuuGGCGGUucgcgGCUUccgCCCGCUgucGCCCu -3'
miRNA:   3'- gGggCUGCCG-----UGAAua-GGGCGA---CGGG- -5'
12483 3' -58.4 NC_003324.1 + 29278 0.66 0.558196
Target:  5'- gCUCGAuCGGCGgaUUGcguuccagcUCCUGCUGCUCg -3'
miRNA:   3'- gGGGCU-GCCGUg-AAU---------AGGGCGACGGG- -5'
12483 3' -58.4 NC_003324.1 + 32638 0.68 0.476086
Target:  5'- gCUgGAUGGCACgagcgcaacgGagacgaaaagcucUCCCGCUGCCUc -3'
miRNA:   3'- gGGgCUGCCGUGaa--------U-------------AGGGCGACGGG- -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.