miRNA display CGI


Results 1 - 20 of 110 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
23254 3' -59.6 NC_005259.1 + 67976 0.69 0.385462
Target:  5'- gCGcAGCGgCgUGGCCAccGcCGCGAGCGUc -3'
miRNA:   3'- gGC-UCGUgGaACCGGU--C-GCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 67058 0.77 0.119516
Target:  5'- cCCGuGCGCCgaucucaagGGCCAGCGUGA-CGCc -3'
miRNA:   3'- -GGCuCGUGGaa-------CCGGUCGCGCUcGCG- -5'
23254 3' -59.6 NC_005259.1 + 64917 0.68 0.448202
Target:  5'- gCGAGCGugaggaugaCgaGuGCCAGCGCGAGgGUg -3'
miRNA:   3'- gGCUCGUg--------GaaC-CGGUCGCGCUCgCG- -5'
23254 3' -59.6 NC_005259.1 + 64800 0.66 0.536401
Target:  5'- gCUGuGUGCCUcGGCCucGGCGgcaaUGAGCGUg -3'
miRNA:   3'- -GGCuCGUGGAaCCGG--UCGC----GCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 64618 0.66 0.546607
Target:  5'- gCGAGCGCgacgGGCagCAGCGCccaccaaucGAGCGUc -3'
miRNA:   3'- gGCUCGUGgaa-CCG--GUCGCG---------CUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 63862 0.71 0.299304
Target:  5'- gCGAGgugGCCggcUGGCCuuGCGUGGGCGUg -3'
miRNA:   3'- gGCUCg--UGGa--ACCGGu-CGCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 63645 0.66 0.540476
Target:  5'- gCGAGCugCUcgcUGGCCGGgaCGcCGgacaccucgggcaccGGCGCg -3'
miRNA:   3'- gGCUCGugGA---ACCGGUC--GC-GC---------------UCGCG- -5'
23254 3' -59.6 NC_005259.1 + 63452 0.66 0.567195
Target:  5'- aUCGAgGC-CCaUGGCCAaccGCGUGAuCGCg -3'
miRNA:   3'- -GGCU-CGuGGaACCGGU---CGCGCUcGCG- -5'
23254 3' -59.6 NC_005259.1 + 62615 0.66 0.526263
Target:  5'- gCUGAcgccGCACCgUGGCCAGCaccGCauuGCGUa -3'
miRNA:   3'- -GGCU----CGUGGaACCGGUCG---CGcu-CGCG- -5'
23254 3' -59.6 NC_005259.1 + 61925 0.66 0.546607
Target:  5'- gUCG-GCAgCUcGGUCucucGCGCGGGUGCc -3'
miRNA:   3'- -GGCuCGUgGAaCCGGu---CGCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 61851 0.71 0.27123
Target:  5'- gUGAGCACCUcGGCCAccgccucGCGUGccGCGUg -3'
miRNA:   3'- gGCUCGUGGAaCCGGU-------CGCGCu-CGCG- -5'
23254 3' -59.6 NC_005259.1 + 60516 0.67 0.50621
Target:  5'- gUCGuaguGCGCCaUGGCCGgGC-CGGGaCGCa -3'
miRNA:   3'- -GGCu---CGUGGaACCGGU-CGcGCUC-GCG- -5'
23254 3' -59.6 NC_005259.1 + 59381 0.69 0.394065
Target:  5'- aCGccGCACCgu-GCCuccgcGCGCGAGCGUg -3'
miRNA:   3'- gGCu-CGUGGaacCGGu----CGCGCUCGCG- -5'
23254 3' -59.6 NC_005259.1 + 58936 0.73 0.209001
Target:  5'- gCGGGCgcgguggcagcgucgGCCUUGGCCAGCagguCGGGCaGCu -3'
miRNA:   3'- gGCUCG---------------UGGAACCGGUCGc---GCUCG-CG- -5'
23254 3' -59.6 NC_005259.1 + 58562 0.69 0.368633
Target:  5'- cUCGGGCGgUUgGGCCGGauCGCG-GCGCg -3'
miRNA:   3'- -GGCUCGUgGAaCCGGUC--GCGCuCGCG- -5'
23254 3' -59.6 NC_005259.1 + 57311 0.69 0.368633
Target:  5'- aUCGAGCACCggcgGuGUCGGUGUGGucauguGCGCu -3'
miRNA:   3'- -GGCUCGUGGaa--C-CGGUCGCGCU------CGCG- -5'
23254 3' -59.6 NC_005259.1 + 57009 0.73 0.206892
Target:  5'- gCGAGCACCUcagcgcGGCuCGGCGCGguggGGuCGCa -3'
miRNA:   3'- gGCUCGUGGAa-----CCG-GUCGCGC----UC-GCG- -5'
23254 3' -59.6 NC_005259.1 + 56850 0.82 0.055627
Target:  5'- aCCGAGCGugUUGGUCAGUGCGAGCa- -3'
miRNA:   3'- -GGCUCGUggAACCGGUCGCGCUCGcg -5'
23254 3' -59.6 NC_005259.1 + 55874 0.67 0.5172
Target:  5'- gCCGAGCGCCUcgccccgaccucgggGGUC-GCGCcgGGGuCGCu -3'
miRNA:   3'- -GGCUCGUGGAa--------------CCGGuCGCG--CUC-GCG- -5'
23254 3' -59.6 NC_005259.1 + 55614 0.66 0.526263
Target:  5'- cUCGcGCGCCUUGGCCGG-GaucaGGGCc- -3'
miRNA:   3'- -GGCuCGUGGAACCGGUCgCg---CUCGcg -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.