miRNA display CGI


Results 1 - 20 of 29 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
1463 3' -54.8 NC_001335.1 + 328 0.66 0.728333
Target:  5'- -gGUCAuAGAGaucuauucgauccGGCaACCGCCGGAUCu -3'
miRNA:   3'- ugCAGU-UCUU-------------CCGgUGGCGGUCUAGu -5'
1463 3' -54.8 NC_001335.1 + 5594 0.69 0.509439
Target:  5'- aGCGUCGAGc---CCGCC-CCAGAUCAg -3'
miRNA:   3'- -UGCAGUUCuuccGGUGGcGGUCUAGU- -5'
1463 3' -54.8 NC_001335.1 + 5688 0.69 0.530831
Target:  5'- gGCGUCGAGcAGGuGCuCGCgGCCAGG-CAg -3'
miRNA:   3'- -UGCAGUUC-UUC-CG-GUGgCGGUCUaGU- -5'
1463 3' -54.8 NC_001335.1 + 6042 0.69 0.498878
Target:  5'- cACaUCGGGAAcGCCGCUGCCGGGUa- -3'
miRNA:   3'- -UGcAGUUCUUcCGGUGGCGGUCUAgu -5'
1463 3' -54.8 NC_001335.1 + 6567 0.69 0.520092
Target:  5'- gGCGUCGAuGAuggcucuGGCCAUCGCgauucccuccCAGAUCGg -3'
miRNA:   3'- -UGCAGUU-CUu------CCGGUGGCG----------GUCUAGU- -5'
1463 3' -54.8 NC_001335.1 + 7236 0.68 0.596675
Target:  5'- cGCGUCGauGGAGGGUaACCGCCcGAcguUCGu -3'
miRNA:   3'- -UGCAGU--UCUUCCGgUGGCGGuCU---AGU- -5'
1463 3' -54.8 NC_001335.1 + 7314 0.66 0.696793
Target:  5'- -gGUCAAuGAAGGCCACgCGauggCAGAggUCAu -3'
miRNA:   3'- ugCAGUU-CUUCCGGUG-GCg---GUCU--AGU- -5'
1463 3' -54.8 NC_001335.1 + 8354 0.67 0.618963
Target:  5'- cAUGagCAAGAAGGCCcguaGCgGCCGGGUg- -3'
miRNA:   3'- -UGCa-GUUCUUCCGG----UGgCGGUCUAgu -5'
1463 3' -54.8 NC_001335.1 + 10248 0.68 0.574511
Target:  5'- cUGUCAAGAAcgauccGGCC-CCGC-AGAUCGu -3'
miRNA:   3'- uGCAGUUCUU------CCGGuGGCGgUCUAGU- -5'
1463 3' -54.8 NC_001335.1 + 11269 0.67 0.652458
Target:  5'- --cUCGAGGccaucaAGGCCGCUGUCGGgAUCAa -3'
miRNA:   3'- ugcAGUUCU------UCCGGUGGCGGUC-UAGU- -5'
1463 3' -54.8 NC_001335.1 + 12206 0.68 0.596675
Target:  5'- cACGUCGaaGGAcAGGCCGCCGaccuggccCCAGAc-- -3'
miRNA:   3'- -UGCAGU--UCU-UCCGGUGGC--------GGUCUagu -5'
1463 3' -54.8 NC_001335.1 + 13070 1.08 0.00114
Target:  5'- aACGUCAAGAAGGCCACCGCCAGAUCAc -3'
miRNA:   3'- -UGCAGUUCUUCCGGUGGCGGUCUAGU- -5'
1463 3' -54.8 NC_001335.1 + 13182 0.72 0.372235
Target:  5'- gUGUCGAGGAGGCucaucagagCACCGCCGaccguGAUCu -3'
miRNA:   3'- uGCAGUUCUUCCG---------GUGGCGGU-----CUAGu -5'
1463 3' -54.8 NC_001335.1 + 16379 0.66 0.696793
Target:  5'- aGCGUCGGGGcagcgucgAGGCgGCUGCCuuGAUg- -3'
miRNA:   3'- -UGCAGUUCU--------UCCGgUGGCGGu-CUAgu -5'
1463 3' -54.8 NC_001335.1 + 16643 0.67 0.641298
Target:  5'- aGCGUCAGGAAcGCCugCguGCCGGuagCGa -3'
miRNA:   3'- -UGCAGUUCUUcCGGugG--CGGUCua-GU- -5'
1463 3' -54.8 NC_001335.1 + 17006 0.7 0.488416
Target:  5'- aGCGUCuGGAAGGCCGgCGUgAGcgCc -3'
miRNA:   3'- -UGCAGuUCUUCCGGUgGCGgUCuaGu -5'
1463 3' -54.8 NC_001335.1 + 17427 0.66 0.674709
Target:  5'- aACGUCAucaAGAAGGUguCCGaguGGGUCAg -3'
miRNA:   3'- -UGCAGU---UCUUCCGguGGCgg-UCUAGU- -5'
1463 3' -54.8 NC_001335.1 + 20361 0.7 0.446667
Target:  5'- cACGUCGuguucgaAGAAGGaCCGCUGaCCGGgAUCAa -3'
miRNA:   3'- -UGCAGU-------UCUUCC-GGUGGC-GGUC-UAGU- -5'
1463 3' -54.8 NC_001335.1 + 25205 0.69 0.520092
Target:  5'- gGCG--AAGAAGGCaGCCGCCAGcgccAUCAc -3'
miRNA:   3'- -UGCagUUCUUCCGgUGGCGGUC----UAGU- -5'
1463 3' -54.8 NC_001335.1 + 28474 0.68 0.595563
Target:  5'- aACGaCGAGGAGGUguaCGCCGCCGgugcguaccuccuGAUCGa -3'
miRNA:   3'- -UGCaGUUCUUCCG---GUGGCGGU-------------CUAGU- -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.