miRNA display CGI


Results 1 - 20 of 31 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
12328 3' -64 NC_003324.1 + 55122 0.68 0.256013
Target:  5'- gCGGCagCCCAgccguccgccuUGCCuGCCCGGCGCGa--- -3'
miRNA:   3'- -GCCG--GGGU-----------GCGG-CGGGUCGCGCaacc -5'
12328 3' -64 NC_003324.1 + 50517 0.67 0.288315
Target:  5'- -aGCCCUGCGagcugcaccaCGCCCAGCGCcUUGcGg -3'
miRNA:   3'- gcCGGGGUGCg---------GCGGGUCGCGcAAC-C- -5'
12328 3' -64 NC_003324.1 + 47705 0.71 0.14395
Target:  5'- gCGGCCCgGuCGCCGUCauGCGCGgcgUGGu -3'
miRNA:   3'- -GCCGGGgU-GCGGCGGguCGCGCa--ACC- -5'
12328 3' -64 NC_003324.1 + 43654 0.68 0.24992
Target:  5'- aGGCCCUcaaucggcugACGuuGCgCGGCGUG-UGGc -3'
miRNA:   3'- gCCGGGG----------UGCggCGgGUCGCGCaACC- -5'
12328 3' -64 NC_003324.1 + 41629 0.67 0.262228
Target:  5'- aGG-CCCGCGCCGCUgucguUAGCGUuuggcacgcguuGUUGGc -3'
miRNA:   3'- gCCgGGGUGCGGCGG-----GUCGCG------------CAACC- -5'
12328 3' -64 NC_003324.1 + 40241 0.67 0.295148
Target:  5'- uGGCuCCCGCucgacuGCCGCCUugcGUGCGguccgGGg -3'
miRNA:   3'- gCCG-GGGUG------CGGCGGGu--CGCGCaa---CC- -5'
12328 3' -64 NC_003324.1 + 35395 0.67 0.288315
Target:  5'- uCGGCCgCCGCGCgcaugguuuccuCGCCCucGGUGCGg--- -3'
miRNA:   3'- -GCCGG-GGUGCG------------GCGGG--UCGCGCaacc -5'
12328 3' -64 NC_003324.1 + 33592 0.69 0.221234
Target:  5'- -cGCCCC-UGCUGCUuugcgCAGCGCGUUGc -3'
miRNA:   3'- gcCGGGGuGCGGCGG-----GUCGCGCAACc -5'
12328 3' -64 NC_003324.1 + 32381 0.66 0.316399
Target:  5'- gCGGCgCCGCgcagagGCCGUugucgCCAGCGUGUucucUGGc -3'
miRNA:   3'- -GCCGgGGUG------CGGCG-----GGUCGCGCA----ACC- -5'
12328 3' -64 NC_003324.1 + 32277 0.67 0.275024
Target:  5'- gGGCCUCgaagAUGCCGCgCAcgacGCGCGUcGGc -3'
miRNA:   3'- gCCGGGG----UGCGGCGgGU----CGCGCAaCC- -5'
12328 3' -64 NC_003324.1 + 31546 0.67 0.295148
Target:  5'- uGGCCgCCACGCgCGCCC-GCG-GUc-- -3'
miRNA:   3'- gCCGG-GGUGCG-GCGGGuCGCgCAacc -5'
12328 3' -64 NC_003324.1 + 31229 0.66 0.346497
Target:  5'- -uGCCCC-CGCCaGCgCCAGCGcCGccGGc -3'
miRNA:   3'- gcCGGGGuGCGG-CG-GGUCGC-GCaaCC- -5'
12328 3' -64 NC_003324.1 + 30314 0.7 0.172246
Target:  5'- uCGGCggUgGCGUCGCUCGGCGCGUgcUGGc -3'
miRNA:   3'- -GCCGg-GgUGCGGCGGGUCGCGCA--ACC- -5'
12328 3' -64 NC_003324.1 + 30019 0.68 0.243947
Target:  5'- -cGCCCCuCGcCCGUCCGGaC-CGUUGGg -3'
miRNA:   3'- gcCGGGGuGC-GGCGGGUC-GcGCAACC- -5'
12328 3' -64 NC_003324.1 + 29471 0.73 0.107978
Target:  5'- aCGGCCgCCugGCUG-CgGGCGCGUcGGg -3'
miRNA:   3'- -GCCGG-GGugCGGCgGgUCGCGCAaCC- -5'
12328 3' -64 NC_003324.1 + 28928 0.66 0.309189
Target:  5'- cCGGCUCCugcuuuggcgUGCCGCCUGGCGCu---- -3'
miRNA:   3'- -GCCGGGGu---------GCGGCGGGUCGCGcaacc -5'
12328 3' -64 NC_003324.1 + 28627 0.7 0.190563
Target:  5'- uGGCCCggaucguugCGgGCCGCCUugucGCGCGUcgUGGu -3'
miRNA:   3'- gCCGGG---------GUgCGGCGGGu---CGCGCA--ACC- -5'
12328 3' -64 NC_003324.1 + 28216 0.7 0.176672
Target:  5'- uCGGCCgCAU-CCGCCuUGGCGgGUUGGa -3'
miRNA:   3'- -GCCGGgGUGcGGCGG-GUCGCgCAACC- -5'
12328 3' -64 NC_003324.1 + 27884 0.66 0.309189
Target:  5'- gGGCUCgGCGCCaucaGUCCGaCGaCGUUGGg -3'
miRNA:   3'- gCCGGGgUGCGG----CGGGUcGC-GCAACC- -5'
12328 3' -64 NC_003324.1 + 24920 0.68 0.24992
Target:  5'- -cGCCagCACGCCGCCCGGuCGCa---- -3'
miRNA:   3'- gcCGGg-GUGCGGCGGGUC-GCGcaacc -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.