miRNA display CGI


Results 1 - 20 of 58 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
28014 3' -54.5 NC_005887.1 + 6469 0.66 0.723449
Target:  5'- uGAAGUa--CGGGCG-CGGCGUCGCGg -3'
miRNA:   3'- gCUUCAgccGUCUGUgGCUGUAGCGC- -5'
28014 3' -54.5 NC_005887.1 + 26650 0.66 0.712628
Target:  5'- aCGccGgCGGCGGAaucauCCGGCcgCGCGg -3'
miRNA:   3'- -GCuuCaGCCGUCUgu---GGCUGuaGCGC- -5'
28014 3' -54.5 NC_005887.1 + 5915 0.66 0.701725
Target:  5'- cCGAAG--GGCaAGAaGCCGGCcgCGCGg -3'
miRNA:   3'- -GCUUCagCCG-UCUgUGGCUGuaGCGC- -5'
28014 3' -54.5 NC_005887.1 + 18371 0.66 0.690753
Target:  5'- gCGuAGaCGGC--GCGCCGGCGcUCGCGa -3'
miRNA:   3'- -GCuUCaGCCGucUGUGGCUGU-AGCGC- -5'
28014 3' -54.5 NC_005887.1 + 15593 0.66 0.690753
Target:  5'- cCGAAGcUGagacGCAGcGCACgGGCGUCGCGc -3'
miRNA:   3'- -GCUUCaGC----CGUC-UGUGgCUGUAGCGC- -5'
28014 3' -54.5 NC_005887.1 + 25235 0.66 0.690753
Target:  5'- uCGgcGUCGuucaGCGGAUucCCGGCGUCGuCGa -3'
miRNA:   3'- -GCuuCAGC----CGUCUGu-GGCUGUAGC-GC- -5'
28014 3' -54.5 NC_005887.1 + 40547 0.66 0.684141
Target:  5'- -cAGGUCGGCGGcACguccuucggguagcgGCCGACG-CGCa -3'
miRNA:   3'- gcUUCAGCCGUC-UG---------------UGGCUGUaGCGc -5'
28014 3' -54.5 NC_005887.1 + 3686 0.66 0.679723
Target:  5'- aGAAGUCGGCGaucuucuaccACGCCGucgaGCcgCGCGc -3'
miRNA:   3'- gCUUCAGCCGUc---------UGUGGC----UGuaGCGC- -5'
28014 3' -54.5 NC_005887.1 + 10158 0.66 0.679723
Target:  5'- gCGAcGUcuaCGGCuGGCAUCGGCAUC-CGg -3'
miRNA:   3'- -GCUuCA---GCCGuCUGUGGCUGUAGcGC- -5'
28014 3' -54.5 NC_005887.1 + 8422 0.67 0.668646
Target:  5'- gCGccGUCGGCAGG--UCGACGUCGa- -3'
miRNA:   3'- -GCuuCAGCCGUCUguGGCUGUAGCgc -5'
28014 3' -54.5 NC_005887.1 + 12558 0.67 0.668646
Target:  5'- uGgcGUCGaCGGcCGCCGGCAUgCGCa -3'
miRNA:   3'- gCuuCAGCcGUCuGUGGCUGUA-GCGc -5'
28014 3' -54.5 NC_005887.1 + 11393 0.67 0.668646
Target:  5'- cCGGAGcgcuggCGGCcGGCGCCGccaagGCAUCGUc -3'
miRNA:   3'- -GCUUCa-----GCCGuCUGUGGC-----UGUAGCGc -5'
28014 3' -54.5 NC_005887.1 + 27220 0.67 0.668646
Target:  5'- uGggGUCGGUcggguccguGACGCCGuACuugCGCa -3'
miRNA:   3'- gCuuCAGCCGu--------CUGUGGC-UGua-GCGc -5'
28014 3' -54.5 NC_005887.1 + 1400 0.67 0.668646
Target:  5'- cCGAagcGGUCGaGCAuGCGCuCGGCGUUGCc -3'
miRNA:   3'- -GCU---UCAGC-CGUcUGUG-GCUGUAGCGc -5'
28014 3' -54.5 NC_005887.1 + 34684 0.67 0.667536
Target:  5'- aCGuuGUCGagcagcaGCGGGCgGCCGuCGUCGCGc -3'
miRNA:   3'- -GCuuCAGC-------CGUCUG-UGGCuGUAGCGC- -5'
28014 3' -54.5 NC_005887.1 + 15079 0.67 0.665315
Target:  5'- gGAAGUCGuGCcGAUcauuggcgacgcggGCCGGCG-CGCGa -3'
miRNA:   3'- gCUUCAGC-CGuCUG--------------UGGCUGUaGCGC- -5'
28014 3' -54.5 NC_005887.1 + 35069 0.67 0.657534
Target:  5'- cCGucGUCGGCGGGCG-CGACuUCGa- -3'
miRNA:   3'- -GCuuCAGCCGUCUGUgGCUGuAGCgc -5'
28014 3' -54.5 NC_005887.1 + 12176 0.67 0.657534
Target:  5'- gGAAGcugcaGGCGuuccgcgacuucGACGCCGGCAUCgGCGc -3'
miRNA:   3'- gCUUCag---CCGU------------CUGUGGCUGUAG-CGC- -5'
28014 3' -54.5 NC_005887.1 + 6498 0.67 0.628557
Target:  5'- gGAAGUUGcGCAGACGCUGuucuacggcaaugacGgCAUCGCc -3'
miRNA:   3'- gCUUCAGC-CGUCUGUGGC---------------U-GUAGCGc -5'
28014 3' -54.5 NC_005887.1 + 27601 0.67 0.624096
Target:  5'- uCGAGcGUCGuGUcgaAGGCGCUGAUaccGUCGCGg -3'
miRNA:   3'- -GCUU-CAGC-CG---UCUGUGGCUG---UAGCGC- -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.