miRNA display CGI


Results 1 - 20 of 83 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
9346 3' -54.9 NC_002512.2 + 142413 0.66 0.97796
Target:  5'- cCGCCAcGAacagcgacacggugaCGCuCGUCC-CGAGAUCGg -3'
miRNA:   3'- -GCGGUuCUg--------------GCG-GCAGGaGUUCUAGU- -5'
9346 3' -54.9 NC_002512.2 + 200783 0.66 0.97773
Target:  5'- uCGCCAuGGCCGCCGccgCCgaagaCGAGG-CGg -3'
miRNA:   3'- -GCGGUuCUGGCGGCa--GGa----GUUCUaGU- -5'
9346 3' -54.9 NC_002512.2 + 165665 0.66 0.976313
Target:  5'- -cCCGAGGCCGagGUCCUCGaugacaucgucauccAGAUCu -3'
miRNA:   3'- gcGGUUCUGGCggCAGGAGU---------------UCUAGu -5'
9346 3' -54.9 NC_002512.2 + 225694 0.66 0.975332
Target:  5'- -aCCGAucuCCGgCGUCCUCAGGAUg- -3'
miRNA:   3'- gcGGUUcu-GGCgGCAGGAGUUCUAgu -5'
9346 3' -54.9 NC_002512.2 + 222525 0.66 0.975332
Target:  5'- cCGCCGcGGCCGCCGUCgCgguGGGcCGg -3'
miRNA:   3'- -GCGGUuCUGGCGGCAG-GaguUCUaGU- -5'
9346 3' -54.9 NC_002512.2 + 219254 0.66 0.975332
Target:  5'- cCGCCucuGGCUGCuCGUCCggCAGGGg-- -3'
miRNA:   3'- -GCGGuu-CUGGCG-GCAGGa-GUUCUagu -5'
9346 3' -54.9 NC_002512.2 + 217286 0.66 0.975332
Target:  5'- cCGCCAugcGGACCGCgCG-CCggGAGAUg- -3'
miRNA:   3'- -GCGGU---UCUGGCG-GCaGGagUUCUAgu -5'
9346 3' -54.9 NC_002512.2 + 176495 0.66 0.975332
Target:  5'- cCGCCAGGAagcCCGUCGUCCauUCcAGcgCc -3'
miRNA:   3'- -GCGGUUCU---GGCGGCAGG--AGuUCuaGu -5'
9346 3' -54.9 NC_002512.2 + 3144 0.66 0.975332
Target:  5'- aCGCCu---CCGCCGUCUcCGGGA-CAg -3'
miRNA:   3'- -GCGGuucuGGCGGCAGGaGUUCUaGU- -5'
9346 3' -54.9 NC_002512.2 + 96108 0.66 0.972751
Target:  5'- cCGCC---GCCGCCGUCgUCGucGUCGu -3'
miRNA:   3'- -GCGGuucUGGCGGCAGgAGUucUAGU- -5'
9346 3' -54.9 NC_002512.2 + 167831 0.66 0.972751
Target:  5'- gGCCGAGGaccCCGCgcaCGUCCgggaggcCAAGAUCc -3'
miRNA:   3'- gCGGUUCU---GGCG---GCAGGa------GUUCUAGu -5'
9346 3' -54.9 NC_002512.2 + 101479 0.66 0.972751
Target:  5'- gGCCGAGACCccCCGUCCccggaCGAG-UCGc -3'
miRNA:   3'- gCGGUUCUGGc-GGCAGGa----GUUCuAGU- -5'
9346 3' -54.9 NC_002512.2 + 212377 0.66 0.972751
Target:  5'- aCGCCGA---CGCCGaCgUCGAGAUCGa -3'
miRNA:   3'- -GCGGUUcugGCGGCaGgAGUUCUAGU- -5'
9346 3' -54.9 NC_002512.2 + 220007 0.66 0.972751
Target:  5'- uCGCCcggcgggucgaGAGGCCGCUccgUCUCGGGGUCc -3'
miRNA:   3'- -GCGG-----------UUCUGGCGGca-GGAGUUCUAGu -5'
9346 3' -54.9 NC_002512.2 + 146786 0.66 0.972751
Target:  5'- aCGCC-GGACCGCCGgacCCggAGGAg-- -3'
miRNA:   3'- -GCGGuUCUGGCGGCa--GGagUUCUagu -5'
9346 3' -54.9 NC_002512.2 + 216207 0.66 0.969981
Target:  5'- cCGCCGcGGCCGUCG-CCUCGuccgGGAg-- -3'
miRNA:   3'- -GCGGUuCUGGCGGCaGGAGU----UCUagu -5'
9346 3' -54.9 NC_002512.2 + 210737 0.66 0.969981
Target:  5'- aGCCcuucGACCacGUCGagCUCAAGAUCAg -3'
miRNA:   3'- gCGGuu--CUGG--CGGCagGAGUUCUAGU- -5'
9346 3' -54.9 NC_002512.2 + 203364 0.66 0.969981
Target:  5'- uGCCGaccAGGCCGCgGUUgCUCAGcAUCAg -3'
miRNA:   3'- gCGGU---UCUGGCGgCAG-GAGUUcUAGU- -5'
9346 3' -54.9 NC_002512.2 + 105967 0.66 0.969981
Target:  5'- gGCC-AGcCCGCCGUCCaccuucccgcUCGaguaacGGAUCAc -3'
miRNA:   3'- gCGGuUCuGGCGGCAGG----------AGU------UCUAGU- -5'
9346 3' -54.9 NC_002512.2 + 219344 0.66 0.967015
Target:  5'- cCGCCGgcuGcCCGgCGUCCgCGAGGUCc -3'
miRNA:   3'- -GCGGUu--CuGGCgGCAGGaGUUCUAGu -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.