miRNA display CGI


Results 1 - 20 of 36 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
33161 3' -54.2 NC_007497.1 + 34107 1.07 0.001496
Target:  5'- cGACGAACACGUCGACGAGUCGCGCAAg -3'
miRNA:   3'- -CUGCUUGUGCAGCUGCUCAGCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 1069 0.66 0.715602
Target:  5'- cACGAGCACGgcaggucaCGAgGGGcagcgCGCGCGAu -3'
miRNA:   3'- cUGCUUGUGCa-------GCUgCUCa----GCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 23278 0.66 0.704616
Target:  5'- cGACGAGCugGUCGACacgcUGCuGCAGg -3'
miRNA:   3'- -CUGCUUGugCAGCUGcucaGCG-CGUU- -5'
33161 3' -54.2 NC_007497.1 + 41222 0.67 0.660051
Target:  5'- -cCGGccGCACGUCGAauUGAGcCGCGCc- -3'
miRNA:   3'- cuGCU--UGUGCAGCU--GCUCaGCGCGuu -5'
33161 3' -54.2 NC_007497.1 + 29883 0.68 0.592594
Target:  5'- cGCGGAUAC-UCGGCGAGU-GCGUGAu -3'
miRNA:   3'- cUGCUUGUGcAGCUGCUCAgCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 34411 0.68 0.591474
Target:  5'- cGGCGccuGCAUGUCGAucaaacuCGAcGUCGCGCu- -3'
miRNA:   3'- -CUGCu--UGUGCAGCU-------GCU-CAGCGCGuu -5'
33161 3' -54.2 NC_007497.1 + 23452 0.68 0.581416
Target:  5'- cGGCGGccgccuuCAUGUCGGCGAucUCGCGCGc -3'
miRNA:   3'- -CUGCUu------GUGCAGCUGCUc-AGCGCGUu -5'
33161 3' -54.2 NC_007497.1 + 28194 0.69 0.537231
Target:  5'- -cCGAACACGccggaCGACGGGUCacucuucugcaGCGCAGg -3'
miRNA:   3'- cuGCUUGUGCa----GCUGCUCAG-----------CGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 34258 0.69 0.526356
Target:  5'- aACGAugACGcUCuGCGAGgCGCGCGAu -3'
miRNA:   3'- cUGCUugUGC-AGcUGCUCaGCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 5839 0.71 0.404045
Target:  5'- uGACGAGCgaGCG-CGGCGAGUUGCuCGAg -3'
miRNA:   3'- -CUGCUUG--UGCaGCUGCUCAGCGcGUU- -5'
33161 3' -54.2 NC_007497.1 + 29792 0.75 0.232002
Target:  5'- cGCGAACugGUCGGuCgGAGUCGgCGCGAc -3'
miRNA:   3'- cUGCUUGugCAGCU-G-CUCAGC-GCGUU- -5'
33161 3' -54.2 NC_007497.1 + 27095 0.68 0.603806
Target:  5'- gGGCGAuuccguCGCG-CGAUGAGcUCGCGCc- -3'
miRNA:   3'- -CUGCUu-----GUGCaGCUGCUC-AGCGCGuu -5'
33161 3' -54.2 NC_007497.1 + 5568 0.68 0.597075
Target:  5'- cGACGaAGCGCGUCGGCGGcggccugcugaauccGgagccgaugCGCGCGAu -3'
miRNA:   3'- -CUGC-UUGUGCAGCUGCU---------------Ca--------GCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 11316 0.68 0.5803
Target:  5'- cGACGAcacgaugGCGCaGUCGGCcgcgcaGGUCGCGCGu -3'
miRNA:   3'- -CUGCU-------UGUG-CAGCUGc-----UCAGCGCGUu -5'
33161 3' -54.2 NC_007497.1 + 8920 0.69 0.526356
Target:  5'- cGCGAuCAgGUCGAUuuugcGGUCGCGCAGg -3'
miRNA:   3'- cUGCUuGUgCAGCUGc----UCAGCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 5924 0.7 0.47337
Target:  5'- uGCGAACGCGggugUCGAgGAugacGUCGUGCAGa -3'
miRNA:   3'- cUGCUUGUGC----AGCUgCU----CAGCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 41549 0.7 0.463091
Target:  5'- cGAgGAGCACugGUCGACG-GUUGCGUg- -3'
miRNA:   3'- -CUgCUUGUG--CAGCUGCuCAGCGCGuu -5'
33161 3' -54.2 NC_007497.1 + 12369 0.72 0.376359
Target:  5'- -cCGGGCACGUCGACGAG-CGacaGUAu -3'
miRNA:   3'- cuGCUUGUGCAGCUGCUCaGCg--CGUu -5'
33161 3' -54.2 NC_007497.1 + 15972 0.74 0.293677
Target:  5'- cGAUGGGCGCuUCGAUGAugcucggcgguGUCGCGCAAa -3'
miRNA:   3'- -CUGCUUGUGcAGCUGCU-----------CAGCGCGUU- -5'
33161 3' -54.2 NC_007497.1 + 17767 0.66 0.715602
Target:  5'- cGGCGAuccugccgucGgGCGUCGcAC-AGUCGCGCGc -3'
miRNA:   3'- -CUGCU----------UgUGCAGC-UGcUCAGCGCGUu -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.