miRNA display CGI


Results 1 - 20 of 49 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
5495 5' -55.7 NC_001798.1 + 110556 0.66 0.913843
Target:  5'- gCGGC---CCUGGCGGGCAuCCUUa--- -3'
miRNA:   3'- -GCCGgaaGGGCCGCUCGU-GGAAaaua -5'
5495 5' -55.7 NC_001798.1 + 78558 0.66 0.910234
Target:  5'- gGGCCUgcgggaggcgcuggCCgCGcGCGAGCGCCg----- -3'
miRNA:   3'- gCCGGAa-------------GG-GC-CGCUCGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 5956 0.66 0.90778
Target:  5'- gGGCCggcgUCCCGGuCGccgccGCACCa----- -3'
miRNA:   3'- gCCGGa---AGGGCC-GCu----CGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 2617 0.66 0.90778
Target:  5'- gGGCgCcgCCCGGCG-GCGCCc----- -3'
miRNA:   3'- gCCG-GaaGGGCCGCuCGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 62282 0.66 0.90778
Target:  5'- cCGGgCggCCCGGCGGgagcGCGCCa----- -3'
miRNA:   3'- -GCCgGaaGGGCCGCU----CGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 86854 0.66 0.90778
Target:  5'- cCGGCCgcgacaagaCCCGGCGGcggucGCGCUUUUc-- -3'
miRNA:   3'- -GCCGGaa-------GGGCCGCU-----CGUGGAAAaua -5'
5495 5' -55.7 NC_001798.1 + 80735 0.66 0.904026
Target:  5'- aCGGCCUUCuCCcGCGAGUcggaacuggaacuguGCCUg---- -3'
miRNA:   3'- -GCCGGAAG-GGcCGCUCG---------------UGGAaaaua -5'
5495 5' -55.7 NC_001798.1 + 147213 0.66 0.901475
Target:  5'- cCGGCCcgggccCCCGGCgGAGCGCg------ -3'
miRNA:   3'- -GCCGGaa----GGGCCG-CUCGUGgaaaaua -5'
5495 5' -55.7 NC_001798.1 + 70318 0.66 0.901475
Target:  5'- gCGGUCggCCCGGCGgaGGCGCg------ -3'
miRNA:   3'- -GCCGGaaGGGCCGC--UCGUGgaaaaua -5'
5495 5' -55.7 NC_001798.1 + 4351 0.66 0.901475
Target:  5'- gCGGCCgagCgCCGGCGGggggcGCGCCg----- -3'
miRNA:   3'- -GCCGGaa-G-GGCCGCU-----CGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 23712 0.66 0.894933
Target:  5'- aCGGCCgggcggcCCCGGCGGGUcgagcuggacGCCg----- -3'
miRNA:   3'- -GCCGGaa-----GGGCCGCUCG----------UGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 101797 0.66 0.888156
Target:  5'- cCGGCC-UCCgCGcCGGGCGCCUc---- -3'
miRNA:   3'- -GCCGGaAGG-GCcGCUCGUGGAaaaua -5'
5495 5' -55.7 NC_001798.1 + 58109 0.66 0.888156
Target:  5'- gCGGCCgcccagggCCCGGCGucuGGguCCUUg--- -3'
miRNA:   3'- -GCCGGaa------GGGCCGC---UCguGGAAaaua -5'
5495 5' -55.7 NC_001798.1 + 39063 0.66 0.888156
Target:  5'- gGGCCUcgaugagauuuUCCUGGCGcAGCACg------ -3'
miRNA:   3'- gCCGGA-----------AGGGCCGC-UCGUGgaaaaua -5'
5495 5' -55.7 NC_001798.1 + 23920 0.66 0.888156
Target:  5'- aGGCCUcgggcgcCCCGGCGcccgugugGGCGCCg----- -3'
miRNA:   3'- gCCGGAa------GGGCCGC--------UCGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 138121 0.66 0.881148
Target:  5'- aCGGCCgucugaaacgCCUGGCGaAGCugCUg---- -3'
miRNA:   3'- -GCCGGaa--------GGGCCGC-UCGugGAaaaua -5'
5495 5' -55.7 NC_001798.1 + 104099 0.67 0.866457
Target:  5'- aGcGCCg-CCUGGCGGGCGCCc----- -3'
miRNA:   3'- gC-CGGaaGGGCCGCUCGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 127744 0.67 0.858786
Target:  5'- gCGGCCgccgcaacaCCCGGCGccaAGCGCCc----- -3'
miRNA:   3'- -GCCGGaa-------GGGCCGC---UCGUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 65603 0.67 0.858786
Target:  5'- gGGCCUccUCgCCGGCGAGgaCGCCc----- -3'
miRNA:   3'- gCCGGA--AG-GGCCGCUC--GUGGaaaaua -5'
5495 5' -55.7 NC_001798.1 + 32045 0.67 0.858786
Target:  5'- gGGCCgcucgcCCCGGCGuccgcgGGCGCCg----- -3'
miRNA:   3'- gCCGGaa----GGGCCGC------UCGUGGaaaaua -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.