miRNA display CGI


Results 1 - 20 of 52 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
9009 3' -54.9 NC_002512.2 + 110550 0.67 0.957653
Target:  5'- gGCGUuUCCGCCcccgcgCGGgaGGUCCUgCCGGg -3'
miRNA:   3'- aUGUAcAGGCGGa-----GCU--UCAGGA-GGUC- -5'
9009 3' -54.9 NC_002512.2 + 84156 0.68 0.909522
Target:  5'- cGCGUGgCCGCgCggGAGGUCCcggUCCAGg -3'
miRNA:   3'- aUGUACaGGCG-GagCUUCAGG---AGGUC- -5'
9009 3' -54.9 NC_002512.2 + 106285 0.68 0.909522
Target:  5'- cUGCAgucuuUCCGCCgCGgcGUCCUCuCAGa -3'
miRNA:   3'- -AUGUac---AGGCGGaGCuuCAGGAG-GUC- -5'
9009 3' -54.9 NC_002512.2 + 113645 0.68 0.915376
Target:  5'- cUGCAgggUgGCCUCGuGGUUCUCCGGg -3'
miRNA:   3'- -AUGUacaGgCGGAGCuUCAGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 131236 0.68 0.920998
Target:  5'- cGCAUGUCUGCCgaCGAAcuccCCUCCGu -3'
miRNA:   3'- aUGUACAGGCGGa-GCUUca--GGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 80139 0.68 0.931545
Target:  5'- cGCGgggucGUCCcCCUCGucGUCCUCCu- -3'
miRNA:   3'- aUGUa----CAGGcGGAGCuuCAGGAGGuc -5'
9009 3' -54.9 NC_002512.2 + 78928 0.67 0.936469
Target:  5'- cGCGaGcCCGCCUCcGAGUCCgcggccgCCGGa -3'
miRNA:   3'- aUGUaCaGGCGGAGcUUCAGGa------GGUC- -5'
9009 3' -54.9 NC_002512.2 + 17273 0.67 0.949858
Target:  5'- ----cGUCCGCgucCUCGucGUCCUCCu- -3'
miRNA:   3'- auguaCAGGCG---GAGCuuCAGGAGGuc -5'
9009 3' -54.9 NC_002512.2 + 80069 0.67 0.953866
Target:  5'- cGCuc-UCCGCCUCGcuGUCCUCg-- -3'
miRNA:   3'- aUGuacAGGCGGAGCuuCAGGAGguc -5'
9009 3' -54.9 NC_002512.2 + 105700 0.69 0.903438
Target:  5'- gUGCGUGccgaacgCCGCgCUCGggGUCCgcucCCAc -3'
miRNA:   3'- -AUGUACa------GGCG-GAGCuuCAGGa---GGUc -5'
9009 3' -54.9 NC_002512.2 + 132028 0.69 0.890591
Target:  5'- gGCggGUCCGUCUCGGucgucgCCUCCGc -3'
miRNA:   3'- aUGuaCAGGCGGAGCUuca---GGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 5798 0.69 0.890591
Target:  5'- gACAcgGUCCcCCU-GAGGUCCUCCGu -3'
miRNA:   3'- aUGUa-CAGGcGGAgCUUCAGGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 98940 0.73 0.681697
Target:  5'- gGCGgucGUCCGCCUCGAgcucAGUCgguguccggggaCUCCAGa -3'
miRNA:   3'- aUGUa--CAGGCGGAGCU----UCAG------------GAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 154336 0.72 0.740702
Target:  5'- ----cGUCCGCgUCGucGUCCUCCGc -3'
miRNA:   3'- auguaCAGGCGgAGCuuCAGGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 112354 0.72 0.769078
Target:  5'- aGCGUGUCCGUgUCGAAgguGUCCgUCCu- -3'
miRNA:   3'- aUGUACAGGCGgAGCUU---CAGG-AGGuc -5'
9009 3' -54.9 NC_002512.2 + 11096 0.71 0.778311
Target:  5'- gGCGgugucGUCCGCCUCGGccucGUCC-CCGGa -3'
miRNA:   3'- aUGUa----CAGGCGGAGCUu---CAGGaGGUC- -5'
9009 3' -54.9 NC_002512.2 + 128556 0.71 0.805209
Target:  5'- cACAUGUCCaCCuUCGAcGgCCUCCGGg -3'
miRNA:   3'- aUGUACAGGcGG-AGCUuCaGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 40134 0.7 0.862276
Target:  5'- ---uUGUCCcccGCCUCGAAGaCCUCCu- -3'
miRNA:   3'- auguACAGG---CGGAGCUUCaGGAGGuc -5'
9009 3' -54.9 NC_002512.2 + 82190 0.69 0.876859
Target:  5'- aGCccGUCCGCCgUCGGGccggcGUCCUcCCGGg -3'
miRNA:   3'- aUGuaCAGGCGG-AGCUU-----CAGGA-GGUC- -5'
9009 3' -54.9 NC_002512.2 + 225868 0.69 0.883833
Target:  5'- gUACAUGaacacggcUCCGCCUCGGGaauacugcUCCUUCAGg -3'
miRNA:   3'- -AUGUAC--------AGGCGGAGCUUc-------AGGAGGUC- -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.