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
9055 3' -52.8 NC_002512.2 + 221976 0.66 0.995351
Target:  5'- aAGA-CCCGAGGUUCgUCcGGGUcGUCu -3'
miRNA:   3'- -UCUgGGGCUCCAAG-AGcUUCAaCAGc -5'
9055 3' -52.8 NC_002512.2 + 128051 0.66 0.995351
Target:  5'- cGGCCCCGAcGGUcg-CGgcGUcGUCGu -3'
miRNA:   3'- uCUGGGGCU-CCAagaGCuuCAaCAGC- -5'
9055 3' -52.8 NC_002512.2 + 192497 0.66 0.995351
Target:  5'- gGGACgcgCUCGAGGUcuUCUCGGAGgacaugggGUCc -3'
miRNA:   3'- -UCUG---GGGCUCCA--AGAGCUUCaa------CAGc -5'
9055 3' -52.8 NC_002512.2 + 87543 0.66 0.995351
Target:  5'- cGACCCUGAGGUcCagGAGGgcgGUUu -3'
miRNA:   3'- uCUGGGGCUCCAaGagCUUCaa-CAGc -5'
9055 3' -52.8 NC_002512.2 + 155380 0.66 0.994625
Target:  5'- gGGACCgCGAGGcuggCGAGGUccucuccguccUGUCGc -3'
miRNA:   3'- -UCUGGgGCUCCaagaGCUUCA-----------ACAGC- -5'
9055 3' -52.8 NC_002512.2 + 210949 0.66 0.994625
Target:  5'- -cGCCCCGAGGccaaCGAGGUcGUCc -3'
miRNA:   3'- ucUGGGGCUCCaagaGCUUCAaCAGc -5'
9055 3' -52.8 NC_002512.2 + 132241 0.66 0.991879
Target:  5'- gAGACggCGAGGUUCUCGAGcugcGUCa -3'
miRNA:   3'- -UCUGggGCUCCAAGAGCUUcaa-CAGc -5'
9055 3' -52.8 NC_002512.2 + 71240 0.66 0.991879
Target:  5'- uGGCCUCGAcgucGGgg-UCGAAGggGUCGg -3'
miRNA:   3'- uCUGGGGCU----CCaagAGCUUCaaCAGC- -5'
9055 3' -52.8 NC_002512.2 + 125075 0.66 0.991879
Target:  5'- uGGACCCCGccc-UgUCGAGGUUGaUCGu -3'
miRNA:   3'- -UCUGGGGCuccaAgAGCUUCAAC-AGC- -5'
9055 3' -52.8 NC_002512.2 + 95872 0.67 0.988123
Target:  5'- aGGGCCgcgcgCCGAGGaUCUCGAGGUcgcccggccgggUGcCGa -3'
miRNA:   3'- -UCUGG-----GGCUCCaAGAGCUUCA------------ACaGC- -5'
9055 3' -52.8 NC_002512.2 + 184212 0.67 0.988123
Target:  5'- cGGACCgCG-GGUUCUCucuGggGUCGa -3'
miRNA:   3'- -UCUGGgGCuCCAAGAGcuuCaaCAGC- -5'
9055 3' -52.8 NC_002512.2 + 174269 0.67 0.986611
Target:  5'- cGGGUCCCGGGG-UCUCGggGgu-UCGc -3'
miRNA:   3'- -UCUGGGGCUCCaAGAGCuuCaacAGC- -5'
9055 3' -52.8 NC_002512.2 + 58150 0.67 0.985634
Target:  5'- aGGGCCCCGAGcucgacgucccgaucGUUCUCGcuaccGgaGUCGa -3'
miRNA:   3'- -UCUGGGGCUC---------------CAAGAGCuu---CaaCAGC- -5'
9055 3' -52.8 NC_002512.2 + 129706 0.67 0.984954
Target:  5'- cGA-CUCGAGGUaacCGggGUUGUCGa -3'
miRNA:   3'- uCUgGGGCUCCAagaGCuuCAACAGC- -5'
9055 3' -52.8 NC_002512.2 + 135881 0.67 0.983145
Target:  5'- gAGGCCCUGAGGgagUUCGAGGa----- -3'
miRNA:   3'- -UCUGGGGCUCCaa-GAGCUUCaacagc -5'
9055 3' -52.8 NC_002512.2 + 167902 0.68 0.981177
Target:  5'- aGGAUCCguuUGAGGUugguuguugggUCUCGGAGUcgUGUCu -3'
miRNA:   3'- -UCUGGG---GCUCCA-----------AGAGCUUCA--ACAGc -5'
9055 3' -52.8 NC_002512.2 + 86915 0.68 0.979042
Target:  5'- gAGACCCUGucGU--UCGAGGUcauccUGUCGg -3'
miRNA:   3'- -UCUGGGGCucCAagAGCUUCA-----ACAGC- -5'
9055 3' -52.8 NC_002512.2 + 152777 0.68 0.977678
Target:  5'- cGGACCCCGcGGUUCcCGGucggaaagcgcugccGGUgaacGUCGg -3'
miRNA:   3'- -UCUGGGGCuCCAAGaGCU---------------UCAa---CAGC- -5'
9055 3' -52.8 NC_002512.2 + 89170 0.68 0.976004
Target:  5'- gAGGCCgagaCGAGGUUgaUCGAGGUccaguuggaggcguUGUCGa -3'
miRNA:   3'- -UCUGGg---GCUCCAAg-AGCUUCA--------------ACAGC- -5'
9055 3' -52.8 NC_002512.2 + 7422 0.68 0.974241
Target:  5'- cGACCgCGAGGgcCggcgCGAGGUUGgccgCGg -3'
miRNA:   3'- uCUGGgGCUCCaaGa---GCUUCAACa---GC- -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.