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
32074 5' -51.2 NC_007016.1 + 12353 0.66 0.992145
Target:  5'- aCCGGGGGGcgcGAGUagcaaAUCCCaggGGUg -3'
miRNA:   3'- -GGCCCUCCuauUUCAa----UAGGGa--CCGg -5'
32074 5' -51.2 NC_007016.1 + 1062 0.66 0.990989
Target:  5'- gCGGaGGGGGUAGAGUg--Cac-GGCCa -3'
miRNA:   3'- gGCC-CUCCUAUUUCAauaGggaCCGG- -5'
32074 5' -51.2 NC_007016.1 + 87116 0.66 0.989703
Target:  5'- gCCGGGAGGGaguacgAAGGUg--CCgUGGg- -3'
miRNA:   3'- -GGCCCUCCUa-----UUUCAauaGGgACCgg -5'
32074 5' -51.2 NC_007016.1 + 118085 0.66 0.988279
Target:  5'- aCCaGGcGGAUGcuagcGUUuuucCCCUGGCCg -3'
miRNA:   3'- -GGcCCuCCUAUuu---CAAua--GGGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 5578 0.66 0.986705
Target:  5'- aCCGGacaAGGAUGAGauguUCCUUGGCg -3'
miRNA:   3'- -GGCCc--UCCUAUUUcaauAGGGACCGg -5'
32074 5' -51.2 NC_007016.1 + 26415 0.66 0.986705
Target:  5'- aCGGGGGGu---GGUUgugGUCgUUGGUCg -3'
miRNA:   3'- gGCCCUCCuauuUCAA---UAGgGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 130070 0.67 0.983857
Target:  5'- gCCGGGccgcuuucgguucgcGGGGcc-GGggGUCCCgcggggGGCCg -3'
miRNA:   3'- -GGCCC---------------UCCUauuUCaaUAGGGa-----CCGG- -5'
32074 5' -51.2 NC_007016.1 + 47558 0.67 0.983078
Target:  5'- cCCGGGGGGcuuu-GUUAUUaaaGGCCg -3'
miRNA:   3'- -GGCCCUCCuauuuCAAUAGggaCCGG- -5'
32074 5' -51.2 NC_007016.1 + 65973 0.67 0.980788
Target:  5'- aUGGGuuuuuaaAGGAUAGcguGGUUAcucaCCCUGGUCu -3'
miRNA:   3'- gGCCC-------UCCUAUU---UCAAUa---GGGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 15695 0.67 0.978749
Target:  5'- gUGGGGGGAacAGGUccgccgUGaUCCUGGCUg -3'
miRNA:   3'- gGCCCUCCUauUUCA------AUaGGGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 9433 0.67 0.978749
Target:  5'- aCCGGGAcaGAaaacGAGUgcUCCCaaaUGGCCa -3'
miRNA:   3'- -GGCCCUc-CUau--UUCAauAGGG---ACCGG- -5'
32074 5' -51.2 NC_007016.1 + 810 0.67 0.973649
Target:  5'- -gGGGAGGGcucGGGUcccgUGUCCUcgugUGGCCc -3'
miRNA:   3'- ggCCCUCCUau-UUCA----AUAGGG----ACCGG- -5'
32074 5' -51.2 NC_007016.1 + 124078 0.68 0.962332
Target:  5'- uCCGGGgaAGGuuacuagcacgagGAGGUUA-CCCgUGGCCu -3'
miRNA:   3'- -GGCCC--UCCua-----------UUUCAAUaGGG-ACCGG- -5'
32074 5' -51.2 NC_007016.1 + 56064 0.68 0.956744
Target:  5'- -gGGGGGGAaGGGGgu-UCCCuccggagUGGCCc -3'
miRNA:   3'- ggCCCUCCUaUUUCaauAGGG-------ACCGG- -5'
32074 5' -51.2 NC_007016.1 + 16041 0.69 0.953133
Target:  5'- cCCGGGGcccUAAAGUcggaCCUGGCCg -3'
miRNA:   3'- -GGCCCUccuAUUUCAauagGGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 91091 0.69 0.948889
Target:  5'- aCGcuGAGGAcGGGGgcccugCCCUGGCCg -3'
miRNA:   3'- gGCc-CUCCUaUUUCaaua--GGGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 81997 0.69 0.948889
Target:  5'- aCCGGGaAGGAUucaucUGUCCCUGcaCCa -3'
miRNA:   3'- -GGCCC-UCCUAuuucaAUAGGGACc-GG- -5'
32074 5' -51.2 NC_007016.1 + 130333 0.69 0.934662
Target:  5'- gCCGGGAGGGgggcuGGGg---CCCggGGCg -3'
miRNA:   3'- -GGCCCUCCUau---UUCaauaGGGa-CCGg -5'
32074 5' -51.2 NC_007016.1 + 55784 0.7 0.923344
Target:  5'- uUGGGuGGAcGAGGcgUGUauguggaacggggCCCUGGCCg -3'
miRNA:   3'- gGCCCuCCUaUUUCa-AUA-------------GGGACCGG- -5'
32074 5' -51.2 NC_007016.1 + 63169 0.71 0.888418
Target:  5'- -gGGGAgacGGAUGgcgugccuugaggacGAGaUGUCUCUGGCCg -3'
miRNA:   3'- ggCCCU---CCUAU---------------UUCaAUAGGGACCGG- -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.