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
12724 5' -56.6 NC_003356.1 + 13257 0.66 0.560055
Target:  5'- gGGCCugGACUccacaccgcgggAGAGCuGaCuCAGCGCa -3'
miRNA:   3'- -UCGGugCUGG------------UCUUGuCcGuGUCGCG- -5'
12724 5' -56.6 NC_003356.1 + 32000 0.66 0.558956
Target:  5'- -aCCACGGCggaagaauccgguCAGAugAuGGCACaguGGCGCa -3'
miRNA:   3'- ucGGUGCUG-------------GUCUugU-CCGUG---UCGCG- -5'
12724 5' -56.6 NC_003356.1 + 19073 0.66 0.549098
Target:  5'- cAGUagaGGCCAGAGCAcGGC-CAGCa- -3'
miRNA:   3'- -UCGgugCUGGUCUUGU-CCGuGUCGcg -5'
12724 5' -56.6 NC_003356.1 + 41737 0.66 0.548006
Target:  5'- cAGCCACG-CCAGAcgauacagcgaaaACcGGC-CAGCa- -3'
miRNA:   3'- -UCGGUGCuGGUCU-------------UGuCCGuGUCGcg -5'
12724 5' -56.6 NC_003356.1 + 34889 0.66 0.538209
Target:  5'- -aCCAUGacgcaGCCAGAACAaGCGCAG-GCa -3'
miRNA:   3'- ucGGUGC-----UGGUCUUGUcCGUGUCgCG- -5'
12724 5' -56.6 NC_003356.1 + 30015 0.66 0.527395
Target:  5'- cAGCgGCGGuaAGAuCAGGCGCGcCGCu -3'
miRNA:   3'- -UCGgUGCUggUCUuGUCCGUGUcGCG- -5'
12724 5' -56.6 NC_003356.1 + 9591 0.66 0.516664
Target:  5'- cGCgCACG-CCAGAAUuaugguGGGCugGGCa- -3'
miRNA:   3'- uCG-GUGCuGGUCUUG------UCCGugUCGcg -5'
12724 5' -56.6 NC_003356.1 + 35450 0.67 0.506021
Target:  5'- uGGuUCugGGaaaacCCGGAACAGGUaaagcggcgACGGCGCu -3'
miRNA:   3'- -UC-GGugCU-----GGUCUUGUCCG---------UGUCGCG- -5'
12724 5' -56.6 NC_003356.1 + 27990 0.67 0.506021
Target:  5'- cGGCgaauaCGCGACCuGAACGGucaGCGGCGUu -3'
miRNA:   3'- -UCG-----GUGCUGGuCUUGUCcg-UGUCGCG- -5'
12724 5' -56.6 NC_003356.1 + 12578 0.67 0.502846
Target:  5'- cAGCCuguacauauugaugAUGugcuuCCGGAGguGGUugAGCGCa -3'
miRNA:   3'- -UCGG--------------UGCu----GGUCUUguCCGugUCGCG- -5'
12724 5' -56.6 NC_003356.1 + 38555 0.67 0.495473
Target:  5'- -cCCACGuCCGGAucgguguguuGCAGGCGuCuGUGCa -3'
miRNA:   3'- ucGGUGCuGGUCU----------UGUCCGU-GuCGCG- -5'
12724 5' -56.6 NC_003356.1 + 16338 0.67 0.495473
Target:  5'- aGGCgAUGACCacAGAACAGGUaaagacuuccgGCAG-GCu -3'
miRNA:   3'- -UCGgUGCUGG--UCUUGUCCG-----------UGUCgCG- -5'
12724 5' -56.6 NC_003356.1 + 31712 0.67 0.474684
Target:  5'- gGGCgcaGCGgguGCCGGAACcgcaguacuggGGGCGCuGGCGCu -3'
miRNA:   3'- -UCGg--UGC---UGGUCUUG-----------UCCGUG-UCGCG- -5'
12724 5' -56.6 NC_003356.1 + 2787 0.68 0.440386
Target:  5'- aAGUCACGgcgaACCAGAaaacacuGCAGcGCgagcaggaaguaaaACAGCGCg -3'
miRNA:   3'- -UCGGUGC----UGGUCU-------UGUC-CG--------------UGUCGCG- -5'
12724 5' -56.6 NC_003356.1 + 20001 0.68 0.42474
Target:  5'- -uCCGCGACCAGuuguuuCuGGCGCucuuucguGCGCa -3'
miRNA:   3'- ucGGUGCUGGUCuu----GuCCGUGu-------CGCG- -5'
12724 5' -56.6 NC_003356.1 + 11146 0.68 0.405658
Target:  5'- cAGCCGCucCCGGAGguGGgCgACAGCGa -3'
miRNA:   3'- -UCGGUGcuGGUCUUguCC-G-UGUCGCg -5'
12724 5' -56.6 NC_003356.1 + 34343 0.68 0.405658
Target:  5'- --gCugGAuCCAGGACuGGCACcGCGUg -3'
miRNA:   3'- ucgGugCU-GGUCUUGuCCGUGuCGCG- -5'
12724 5' -56.6 NC_003356.1 + 7668 0.69 0.387123
Target:  5'- uGGCUAUGuucuCCAucACAGGCAuCAGCGa -3'
miRNA:   3'- -UCGGUGCu---GGUcuUGUCCGU-GUCGCg -5'
12724 5' -56.6 NC_003356.1 + 41877 0.69 0.378068
Target:  5'- gAGgCAUGGCguaCAGAACAGGa--AGCGCa -3'
miRNA:   3'- -UCgGUGCUG---GUCUUGUCCgugUCGCG- -5'
12724 5' -56.6 NC_003356.1 + 29922 0.69 0.360389
Target:  5'- cGUgACGgaaGCCGGAACucGGGUAgCGGCGCg -3'
miRNA:   3'- uCGgUGC---UGGUCUUG--UCCGU-GUCGCG- -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.