miRNA display CGI


Results 1 - 20 of 61 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
28010 3' -53.2 NC_005887.1 + 37586 0.78 0.188801
Target:  5'- gCCGCGGCggaaUUCGGAU-CUCGUCAGuGCg -3'
miRNA:   3'- -GGCGCCGg---AAGCUUAgGAGCAGUU-CG- -5'
28010 3' -53.2 NC_005887.1 + 26086 0.67 0.728901
Target:  5'- -aGCGGCCcgcgcggCGuuUCauggCGUCGAGCa -3'
miRNA:   3'- ggCGCCGGaa-----GCuuAGga--GCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 32468 0.67 0.718056
Target:  5'- gCGCGGCgUgCGGAUCgauCUCGUUguaguAGGCa -3'
miRNA:   3'- gGCGCCGgAaGCUUAG---GAGCAG-----UUCG- -5'
28010 3' -53.2 NC_005887.1 + 19952 0.67 0.718056
Target:  5'- uCCGUGGCgUUCGAGuUUCUcaucCGUCuuGCu -3'
miRNA:   3'- -GGCGCCGgAAGCUU-AGGA----GCAGuuCG- -5'
28010 3' -53.2 NC_005887.1 + 41622 0.67 0.707123
Target:  5'- gCGCGGCCcgugaGGAUCUgcugCGUCugcgcGGCg -3'
miRNA:   3'- gGCGCCGGaag--CUUAGGa---GCAGu----UCG- -5'
28010 3' -53.2 NC_005887.1 + 34389 0.68 0.696113
Target:  5'- gUGCGGCCgggcgCGAGgcccggCCUgcaaucaGUCGAGCu -3'
miRNA:   3'- gGCGCCGGaa---GCUUa-----GGAg------CAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 16867 0.68 0.685039
Target:  5'- aCCGCGGCg--CGGAcggCUCGaCAGGCa -3'
miRNA:   3'- -GGCGCCGgaaGCUUag-GAGCaGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 22870 0.68 0.673913
Target:  5'- gCCGcCGGCCgcuaUCaGAUCCUCG-CGcGCu -3'
miRNA:   3'- -GGC-GCCGGa---AGcUUAGGAGCaGUuCG- -5'
28010 3' -53.2 NC_005887.1 + 3717 0.68 0.673913
Target:  5'- gCCGCGcGCCgacCGcGAUCCgCG-CAAGCu -3'
miRNA:   3'- -GGCGC-CGGaa-GC-UUAGGaGCaGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 24682 0.68 0.667216
Target:  5'- gCCGCGGCCggC--AUCCUCGaccgccuggaugauaUCcAGCg -3'
miRNA:   3'- -GGCGCCGGaaGcuUAGGAGC---------------AGuUCG- -5'
28010 3' -53.2 NC_005887.1 + 33424 0.68 0.651548
Target:  5'- aCCGCGaCCgagcaGAcgAUCCUCGaCGAGCu -3'
miRNA:   3'- -GGCGCcGGaag--CU--UAGGAGCaGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 35407 0.69 0.606678
Target:  5'- cCCGCgcacGGCCUUCGcccacgagucGAUCag-GUCGAGCg -3'
miRNA:   3'- -GGCG----CCGGAAGC----------UUAGgagCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 33623 0.7 0.540229
Target:  5'- gCGUGGUCUUCGAAcuUCC-CGU--AGCg -3'
miRNA:   3'- gGCGCCGGAAGCUU--AGGaGCAguUCG- -5'
28010 3' -53.2 NC_005887.1 + 17415 0.7 0.540229
Target:  5'- uCgGCGGCauggCGAAgaacaucgCgCUCGUCGAGCg -3'
miRNA:   3'- -GgCGCCGgaa-GCUUa-------G-GAGCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 2947 0.71 0.466126
Target:  5'- gCCGCGGCaccgccgCGAccAUCCUCG-CcGGCg -3'
miRNA:   3'- -GGCGCCGgaa----GCU--UAGGAGCaGuUCG- -5'
28010 3' -53.2 NC_005887.1 + 26390 0.71 0.466126
Target:  5'- gUCGCGGaUCgucugCGggUUCUgGUCGAGCu -3'
miRNA:   3'- -GGCGCC-GGaa---GCuuAGGAgCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 26144 0.75 0.296361
Target:  5'- uUCGCGGCgcUCGAcgacGUCCUCGUCGAu- -3'
miRNA:   3'- -GGCGCCGgaAGCU----UAGGAGCAGUUcg -5'
28010 3' -53.2 NC_005887.1 + 30224 0.75 0.296361
Target:  5'- gUCGCGGCCUUCGA-UgUUCGaCAGGUc -3'
miRNA:   3'- -GGCGCCGGAAGCUuAgGAGCaGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 34870 0.77 0.216298
Target:  5'- aUCGCGGCC-UCGAucgCCUUGUCGuucGCg -3'
miRNA:   3'- -GGCGCCGGaAGCUua-GGAGCAGUu--CG- -5'
28010 3' -53.2 NC_005887.1 + 31270 0.85 0.065427
Target:  5'- cUCGuCGGCCgcgUCGAucgCCUCGUCGAGCu -3'
miRNA:   3'- -GGC-GCCGGa--AGCUua-GGAGCAGUUCG- -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.