miRNA display CGI


Results 1 - 20 of 25 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
28007 3' -59.8 NC_005887.1 + 41191 0.66 0.438434
Target:  5'- cCGCCuggcugCAUCcGACCCgcgCGUCGUCgUGCc -3'
miRNA:   3'- -GCGG------GUAGuCUGGGa--GCGGCAG-ACGc -5'
28007 3' -59.8 NC_005887.1 + 20701 0.66 0.438434
Target:  5'- aCGCCCGUCAGAUUggUCGgCGUCggGUa -3'
miRNA:   3'- -GCGGGUAGUCUGGg-AGCgGCAGa-CGc -5'
28007 3' -59.8 NC_005887.1 + 24974 0.66 0.438434
Target:  5'- gCGUUCAaCAGcgaGCCCUCGCCGaacugGCGg -3'
miRNA:   3'- -GCGGGUaGUC---UGGGAGCGGCaga--CGC- -5'
28007 3' -59.8 NC_005887.1 + 36525 0.66 0.428947
Target:  5'- uCGCCCuUCGcGACCCgCGCCGaCU-CGa -3'
miRNA:   3'- -GCGGGuAGU-CUGGGaGCGGCaGAcGC- -5'
28007 3' -59.8 NC_005887.1 + 35404 0.66 0.426125
Target:  5'- gCGCCCGcgCAcGGCCUUCGCCcacgagucgaucagGUCgaGCGa -3'
miRNA:   3'- -GCGGGUa-GU-CUGGGAGCGG--------------CAGa-CGC- -5'
28007 3' -59.8 NC_005887.1 + 4158 0.66 0.419582
Target:  5'- aCGCUguUcCAGAUCCUCGUCGaCaGCGg -3'
miRNA:   3'- -GCGGguA-GUCUGGGAGCGGCaGaCGC- -5'
28007 3' -59.8 NC_005887.1 + 29171 0.66 0.410343
Target:  5'- gGCCUGcUC-GACCgCUccCGCUGUCUGCGc -3'
miRNA:   3'- gCGGGU-AGuCUGG-GA--GCGGCAGACGC- -5'
28007 3' -59.8 NC_005887.1 + 24101 0.66 0.40123
Target:  5'- --aUCAUguGGCCCUUgGCCGUgCUGCGc -3'
miRNA:   3'- gcgGGUAguCUGGGAG-CGGCA-GACGC- -5'
28007 3' -59.8 NC_005887.1 + 40741 0.66 0.40123
Target:  5'- cCGCCCgcGUCgAGGCgaUCGCCGUUgGCGc -3'
miRNA:   3'- -GCGGG--UAG-UCUGggAGCGGCAGaCGC- -5'
28007 3' -59.8 NC_005887.1 + 34446 0.66 0.40123
Target:  5'- aGUCCGUuacugCAGAUCgUCGCCGgcCUGCu -3'
miRNA:   3'- gCGGGUA-----GUCUGGgAGCGGCa-GACGc -5'
28007 3' -59.8 NC_005887.1 + 25875 0.66 0.392248
Target:  5'- aGCCCGcCGGAUCCUgccgCGCgGUCgaGCGc -3'
miRNA:   3'- gCGGGUaGUCUGGGA----GCGgCAGa-CGC- -5'
28007 3' -59.8 NC_005887.1 + 22876 0.67 0.357654
Target:  5'- gGCCgcUAUCAGAUCCUCGCgCG-CUGg- -3'
miRNA:   3'- gCGG--GUAGUCUGGGAGCG-GCaGACgc -5'
28007 3' -59.8 NC_005887.1 + 26719 0.67 0.349346
Target:  5'- gCGCCCugAUCGGcgaGCCCg-GCCGcCUGCu -3'
miRNA:   3'- -GCGGG--UAGUC---UGGGagCGGCaGACGc -5'
28007 3' -59.8 NC_005887.1 + 34619 0.68 0.333146
Target:  5'- uGCCCGcCAG-CCaUUCGCCGUUcGCGu -3'
miRNA:   3'- gCGGGUaGUCuGG-GAGCGGCAGaCGC- -5'
28007 3' -59.8 NC_005887.1 + 41201 0.68 0.325255
Target:  5'- gGCCCGUCAGAUCCUucacgCGCaCG-C-GCGg -3'
miRNA:   3'- gCGGGUAGUCUGGGA-----GCG-GCaGaCGC- -5'
28007 3' -59.8 NC_005887.1 + 1382 0.68 0.325255
Target:  5'- aCGUaCAUCAGGCCCgCGCCGaa-GCGg -3'
miRNA:   3'- -GCGgGUAGUCUGGGaGCGGCagaCGC- -5'
28007 3' -59.8 NC_005887.1 + 25433 0.69 0.287897
Target:  5'- gCGCCCGUCG---UCUUGCCGaUCUGCu -3'
miRNA:   3'- -GCGGGUAGUcugGGAGCGGC-AGACGc -5'
28007 3' -59.8 NC_005887.1 + 10285 0.69 0.287897
Target:  5'- aCGCCUAUgGGuguguCCCguuuCCGUCUGCGg -3'
miRNA:   3'- -GCGGGUAgUCu----GGGagc-GGCAGACGC- -5'
28007 3' -59.8 NC_005887.1 + 27079 0.69 0.267148
Target:  5'- uCGCCgG-CGGACgCUCGCCGcgcagcaCUGCGg -3'
miRNA:   3'- -GCGGgUaGUCUGgGAGCGGCa------GACGC- -5'
28007 3' -59.8 NC_005887.1 + 5271 0.7 0.247624
Target:  5'- uCGCCCGcuUCGGugCgaaCGCCGUCaGCGa -3'
miRNA:   3'- -GCGGGU--AGUCugGga-GCGGCAGaCGC- -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.