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 + 227553 0.7 0.830735
Target:  5'- gGCggGUCCGCgacCGAGG-CCUCCGGa -3'
miRNA:   3'- aUGuaCAGGCGga-GCUUCaGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 225868 0.69 0.883833
Target:  5'- gUACAUGaacacggcUCCGCCUCGGGaauacugcUCCUUCAGg -3'
miRNA:   3'- -AUGUAC--------AGGCGGAGCUUc-------AGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 223501 0.66 0.961221
Target:  5'- cUGCccGUuaacCCGCCUCGAAGUCCg---- -3'
miRNA:   3'- -AUGuaCA----GGCGGAGCUUCAGGagguc -5'
9009 3' -54.9 NC_002512.2 + 218747 0.71 0.813881
Target:  5'- cGCGUGUCCGgcCCUCGGAcUCCUCg-- -3'
miRNA:   3'- aUGUACAGGC--GGAGCUUcAGGAGguc -5'
9009 3' -54.9 NC_002512.2 + 218272 0.69 0.903438
Target:  5'- -cCAUGuacucauucuccUCgGCCUCGggGUCC-CCGGc -3'
miRNA:   3'- auGUAC------------AGgCGGAGCuuCAGGaGGUC- -5'
9009 3' -54.9 NC_002512.2 + 218246 0.74 0.621246
Target:  5'- aUAUAUGUCCGggUCGgcGUCCUCCAc -3'
miRNA:   3'- -AUGUACAGGCggAGCuuCAGGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 218013 0.67 0.941162
Target:  5'- gGgAUGUCCaccaCCUCGuaggGGUCCUCCGc -3'
miRNA:   3'- aUgUACAGGc---GGAGCu---UCAGGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 214641 0.68 0.915376
Target:  5'- cGCGgg-CCGCCUCGcAGUCuCUCCu- -3'
miRNA:   3'- aUGUacaGGCGGAGCuUCAG-GAGGuc -5'
9009 3' -54.9 NC_002512.2 + 210940 0.67 0.949858
Target:  5'- aUGCAguUCCGCCccgaggccaaCGAGGUCgUCCGGg -3'
miRNA:   3'- -AUGUacAGGCGGa---------GCUUCAGgAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 187263 0.69 0.897127
Target:  5'- gUugAUGgcggacgUCGCCUCGAAGUgCCcCCGGg -3'
miRNA:   3'- -AugUACa------GGCGGAGCUUCA-GGaGGUC- -5'
9009 3' -54.9 NC_002512.2 + 181126 0.68 0.928479
Target:  5'- gACAcGUCCGUCUccagggccaggaCGAacgacuccgcggccaGGUCCUCCAGc -3'
miRNA:   3'- aUGUaCAGGCGGA------------GCU---------------UCAGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 176732 0.67 0.953866
Target:  5'- gUugAUcUCCGCCgUC-AGGUCCUUCAGg -3'
miRNA:   3'- -AugUAcAGGCGG-AGcUUCAGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 174026 1.06 0.007917
Target:  5'- gUACAUGUCCGCCUCGAAGUCCUCCAGc -3'
miRNA:   3'- -AUGUACAGGCGGAGCUUCAGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 172939 0.67 0.957653
Target:  5'- cACcuucgCCGCCUCGGuGGUgCUCCGGa -3'
miRNA:   3'- aUGuaca-GGCGGAGCU-UCAgGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 157346 0.7 0.846885
Target:  5'- -cCGUGuUCCGCCUggccgcCGAGGUCCgggccgCCGGg -3'
miRNA:   3'- auGUAC-AGGCGGA------GCUUCAGGa-----GGUC- -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 + 140537 0.71 0.822392
Target:  5'- gACGg--CCGCCUCGAcgccguucuGGUCCUCUAc -3'
miRNA:   3'- aUGUacaGGCGGAGCU---------UCAGGAGGUc -5'
9009 3' -54.9 NC_002512.2 + 139272 0.69 0.897127
Target:  5'- cGCGcUGUCCGCCUUGucccGGUCCaCCGu -3'
miRNA:   3'- aUGU-ACAGGCGGAGCu---UCAGGaGGUc -5'
9009 3' -54.9 NC_002512.2 + 136986 0.78 0.411777
Target:  5'- gACGcUGUUCGCCUCGAccAG-CCUCCAGg -3'
miRNA:   3'- aUGU-ACAGGCGGAGCU--UCaGGAGGUC- -5'
9009 3' -54.9 NC_002512.2 + 132028 0.69 0.890591
Target:  5'- gGCggGUCCGUCUCGGucgucgCCUCCGc -3'
miRNA:   3'- aUGuaCAGGCGGAGCUuca---GGAGGUc -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.