miRNA display CGI


Results 1 - 20 of 41 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
23162 5' -59.5 NC_005178.1 + 494 0.69 0.221689
Target:  5'- uGCUGCcgCCUCGuCCAGCgaGCCG-GCc -3'
miRNA:   3'- gCGGCGuaGGAGU-GGUCG--UGGCuCGa -5'
23162 5' -59.5 NC_005178.1 + 2959 0.68 0.294584
Target:  5'- gGcCCGCgAUCCUCGCgGccGC-CCGAGCg -3'
miRNA:   3'- gC-GGCG-UAGGAGUGgU--CGuGGCUCGa -5'
23162 5' -59.5 NC_005178.1 + 3622 0.67 0.317461
Target:  5'- aCGCCcCGgaaagCCggCACCAGgcCGCCGAGCa -3'
miRNA:   3'- -GCGGcGUa----GGa-GUGGUC--GUGGCUCGa -5'
23162 5' -59.5 NC_005178.1 + 4149 0.71 0.164732
Target:  5'- gGCCGCuUCCUCugCAcCGCaGAGCUg -3'
miRNA:   3'- gCGGCGuAGGAGugGUcGUGgCUCGA- -5'
23162 5' -59.5 NC_005178.1 + 5703 0.66 0.375927
Target:  5'- aCGuuGCGaaUCCUCGguCCAGCgACCccgGAGCa -3'
miRNA:   3'- -GCggCGU--AGGAGU--GGUCG-UGG---CUCGa -5'
23162 5' -59.5 NC_005178.1 + 5740 0.66 0.361941
Target:  5'- uCGCCGCAUcgguggcggCCUCgggcacgaccgugucGcCCAGCACCGuucAGCg -3'
miRNA:   3'- -GCGGCGUA---------GGAG---------------U-GGUCGUGGC---UCGa -5'
23162 5' -59.5 NC_005178.1 + 5799 0.71 0.160263
Target:  5'- uCGCCgGCAUuaCCUCggGCCAgGCGCUGGGCUc -3'
miRNA:   3'- -GCGG-CGUA--GGAG--UGGU-CGUGGCUCGA- -5'
23162 5' -59.5 NC_005178.1 + 7038 0.75 0.088668
Target:  5'- gCGUCGUGUCCUgGCC-GCGCUGAGCc -3'
miRNA:   3'- -GCGGCGUAGGAgUGGuCGUGGCUCGa -5'
23162 5' -59.5 NC_005178.1 + 8693 0.69 0.252725
Target:  5'- uGCCGCAUcgauggCCUCAUCgAGCugCGGGa- -3'
miRNA:   3'- gCGGCGUA------GGAGUGG-UCGugGCUCga -5'
23162 5' -59.5 NC_005178.1 + 9039 0.66 0.358502
Target:  5'- gCGCCGCccAUCCUCGuugguugauguCCAGCAgC-AGCg -3'
miRNA:   3'- -GCGGCG--UAGGAGU-----------GGUCGUgGcUCGa -5'
23162 5' -59.5 NC_005178.1 + 9325 0.68 0.273012
Target:  5'- aCGCCGUuUCCUgCGCCuGCGaCGAGUg -3'
miRNA:   3'- -GCGGCGuAGGA-GUGGuCGUgGCUCGa -5'
23162 5' -59.5 NC_005178.1 + 10042 0.73 0.131937
Target:  5'- -aCCGCGcUCCUgGCCAGCGCCcaucgccccugGAGCUa -3'
miRNA:   3'- gcGGCGU-AGGAgUGGUCGUGG-----------CUCGA- -5'
23162 5' -59.5 NC_005178.1 + 10788 0.7 0.199251
Target:  5'- cCGCCGcCAUCCUgGCCgAGCccaGCCgcGAGCg -3'
miRNA:   3'- -GCGGC-GUAGGAgUGG-UCG---UGG--CUCGa -5'
23162 5' -59.5 NC_005178.1 + 11087 0.66 0.367143
Target:  5'- -cCCGCAUCCaccucggcCGgCAGCGCCGcGCUg -3'
miRNA:   3'- gcGGCGUAGGa-------GUgGUCGUGGCuCGA- -5'
23162 5' -59.5 NC_005178.1 + 11860 0.66 0.384851
Target:  5'- gGCaGCAgcCCUa--CAGCGCCGAGCa -3'
miRNA:   3'- gCGgCGUa-GGAgugGUCGUGGCUCGa -5'
23162 5' -59.5 NC_005178.1 + 15647 0.74 0.099427
Target:  5'- aGCaGCAUCUUCGCCacgucuuccAGCGCCGGGCc -3'
miRNA:   3'- gCGgCGUAGGAGUGG---------UCGUGGCUCGa -5'
23162 5' -59.5 NC_005178.1 + 15774 0.69 0.233696
Target:  5'- uCGCCGCcgCCUgGCUGGCguuggaaaGCgGAGCg -3'
miRNA:   3'- -GCGGCGuaGGAgUGGUCG--------UGgCUCGa -5'
23162 5' -59.5 NC_005178.1 + 16854 0.67 0.344975
Target:  5'- gCGCCGC-UCCUgGaugugaUCAGCcgcggagguagcgagGCCGAGCUg -3'
miRNA:   3'- -GCGGCGuAGGAgU------GGUCG---------------UGGCUCGA- -5'
23162 5' -59.5 NC_005178.1 + 17109 0.68 0.280059
Target:  5'- aCGuCCGCGUCCUgGgCCAG-GCCGAGg- -3'
miRNA:   3'- -GC-GGCGUAGGAgU-GGUCgUGGCUCga -5'
23162 5' -59.5 NC_005178.1 + 19475 0.7 0.215885
Target:  5'- uGCgGCAggUUCGCCAGCugcucgcgagcgACCGGGCUg -3'
miRNA:   3'- gCGgCGUagGAGUGGUCG------------UGGCUCGA- -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.