miRNA display CGI


Results 1 - 20 of 52 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
12793 3' -54.5 NC_003387.1 + 32419 0.66 0.763594
Target:  5'- aCCGGacGCCGuUGACGUAGCaGCCcagcUCGg -3'
miRNA:   3'- -GGCU--UGGC-GCUGUAUCGcCGGa---AGUa -5'
12793 3' -54.5 NC_003387.1 + 45718 0.66 0.763594
Target:  5'- gCCGAGCugcugCGCGACAUucuGCGGCg----- -3'
miRNA:   3'- -GGCUUG-----GCGCUGUAu--CGCCGgaagua -5'
12793 3' -54.5 NC_003387.1 + 46296 0.66 0.753227
Target:  5'- gCCGAGCagGCGGCGcAGCgGGCCg---- -3'
miRNA:   3'- -GGCUUGg-CGCUGUaUCG-CCGGaagua -5'
12793 3' -54.5 NC_003387.1 + 198 0.66 0.753227
Target:  5'- cUCGGcCCGCGACAUuGCcGCgUUCGUc -3'
miRNA:   3'- -GGCUuGGCGCUGUAuCGcCGgAAGUA- -5'
12793 3' -54.5 NC_003387.1 + 5237 0.66 0.753227
Target:  5'- gUGAACCGCGACcc-GCuGGCCgaCGg -3'
miRNA:   3'- gGCUUGGCGCUGuauCG-CCGGaaGUa -5'
12793 3' -54.5 NC_003387.1 + 38071 0.66 0.752183
Target:  5'- gCGAgcGCCGCGucacuguGCGcGGCGGCCUg--- -3'
miRNA:   3'- gGCU--UGGCGC-------UGUaUCGCCGGAagua -5'
12793 3' -54.5 NC_003387.1 + 31025 0.66 0.742734
Target:  5'- gCGGGCCGCGcucgcCGaGGCGGCCa---- -3'
miRNA:   3'- gGCUUGGCGCu----GUaUCGCCGGaagua -5'
12793 3' -54.5 NC_003387.1 + 13983 0.66 0.742734
Target:  5'- cUCGAACCGCaugcccuuCGcccUGGCGGCCUUg-- -3'
miRNA:   3'- -GGCUUGGCGcu------GU---AUCGCCGGAAgua -5'
12793 3' -54.5 NC_003387.1 + 25005 0.66 0.742734
Target:  5'- aCCGGggGCgGCuGAUAUgcAGCGGCCUgUCGg -3'
miRNA:   3'- -GGCU--UGgCG-CUGUA--UCGCCGGA-AGUa -5'
12793 3' -54.5 NC_003387.1 + 6791 0.66 0.732127
Target:  5'- gCCGAG-CGCGACAUGGUcGCCcugCGg -3'
miRNA:   3'- -GGCUUgGCGCUGUAUCGcCGGaa-GUa -5'
12793 3' -54.5 NC_003387.1 + 1937 0.66 0.732127
Target:  5'- cCCGAuCCGCGACGcaGGCGGUUg---- -3'
miRNA:   3'- -GGCUuGGCGCUGUa-UCGCCGGaagua -5'
12793 3' -54.5 NC_003387.1 + 4472 0.66 0.721418
Target:  5'- cCCGAGCUGCuGGCc--GCGGCCg---- -3'
miRNA:   3'- -GGCUUGGCG-CUGuauCGCCGGaagua -5'
12793 3' -54.5 NC_003387.1 + 38838 0.66 0.721418
Target:  5'- gUCGAACCugcccgGCGGCAUugcguuGCGGaUCUUCAa -3'
miRNA:   3'- -GGCUUGG------CGCUGUAu-----CGCC-GGAAGUa -5'
12793 3' -54.5 NC_003387.1 + 41217 0.66 0.718187
Target:  5'- cCCGAAuaagcacggcaacuCCGCGguGCAUGGCGGCgacaaggUCGUg -3'
miRNA:   3'- -GGCUU--------------GGCGC--UGUAUCGCCGga-----AGUA- -5'
12793 3' -54.5 NC_003387.1 + 39028 0.66 0.710619
Target:  5'- aCGAaacACCGUGG--UGGCGGCCggUCGa -3'
miRNA:   3'- gGCU---UGGCGCUguAUCGCCGGa-AGUa -5'
12793 3' -54.5 NC_003387.1 + 23302 0.66 0.710619
Target:  5'- gCGGGCCGCuGC--GGCGGCCUccUCc- -3'
miRNA:   3'- gGCUUGGCGcUGuaUCGCCGGA--AGua -5'
12793 3' -54.5 NC_003387.1 + 27267 0.66 0.710619
Target:  5'- aUGAGCCGCGACGcgggcAGCGcGCCcugCGa -3'
miRNA:   3'- gGCUUGGCGCUGUa----UCGC-CGGaa-GUa -5'
12793 3' -54.5 NC_003387.1 + 12271 0.67 0.699741
Target:  5'- cCCGcGCCugGCGACc-GGCGGCCggaUCAg -3'
miRNA:   3'- -GGCuUGG--CGCUGuaUCGCCGGa--AGUa -5'
12793 3' -54.5 NC_003387.1 + 27889 0.67 0.688796
Target:  5'- cCCG-GCCGCaGACAgcgcacacGCGGCCUUgAc -3'
miRNA:   3'- -GGCuUGGCG-CUGUau------CGCCGGAAgUa -5'
12793 3' -54.5 NC_003387.1 + 820 0.67 0.688796
Target:  5'- gCGAAgCGCGACGacggccugUAcGCGGCCgaCAUg -3'
miRNA:   3'- gGCUUgGCGCUGU--------AU-CGCCGGaaGUA- -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.