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
28334 3' -62.9 NC_005946.1 + 2234 1.12 0.000331
Target:  5'- cCCGACCAGGACGCCGCCCUGGGCUCCu -3'
miRNA:   3'- -GGCUGGUCCUGCGGCGGGACCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 2886 0.69 0.366328
Target:  5'- gCCGACCuguccucgcAGGACGCCGgC-UGGGC-Ca -3'
miRNA:   3'- -GGCUGG---------UCCUGCGGCgGgACCCGaGg -5'
28334 3' -62.9 NC_005946.1 + 8088 0.67 0.493803
Target:  5'- gUGGCCAGGAUGagcucgggaggcaUCGUCUcGGGCUCa -3'
miRNA:   3'- gGCUGGUCCUGC-------------GGCGGGaCCCGAGg -5'
28334 3' -62.9 NC_005946.1 + 11280 0.66 0.56518
Target:  5'- cCCGGCuCccgucaggaugucuaGGGACuccucgaagGCCGCCCUgcucaGGGgUCCg -3'
miRNA:   3'- -GGCUG-G---------------UCCUG---------CGGCGGGA-----CCCgAGG- -5'
28334 3' -62.9 NC_005946.1 + 12621 0.67 0.484584
Target:  5'- aCGACCugaGGGACaGCCuGCCCcaggaggUGGaggaGCUCCu -3'
miRNA:   3'- gGCUGG---UCCUG-CGG-CGGG-------ACC----CGAGG- -5'
28334 3' -62.9 NC_005946.1 + 14397 0.68 0.422559
Target:  5'- uCUGACCAGaGGCuGCauaGUCCUGGccaggggagcggcGCUCCu -3'
miRNA:   3'- -GGCUGGUC-CUG-CGg--CGGGACC-------------CGAGG- -5'
28334 3' -62.9 NC_005946.1 + 14552 0.7 0.328924
Target:  5'- gCCGuCCAGGACGaccCCGCCUUuGGCcaCCa -3'
miRNA:   3'- -GGCuGGUCCUGC---GGCGGGAcCCGa-GG- -5'
28334 3' -62.9 NC_005946.1 + 20735 0.69 0.358617
Target:  5'- aCGACCuGGACGCCGUggucaccagCCUGGcCggCCu -3'
miRNA:   3'- gGCUGGuCCUGCGGCG---------GGACCcGa-GG- -5'
28334 3' -62.9 NC_005946.1 + 20909 0.66 0.536212
Target:  5'- -aGGcCCAGGAgGCCcugucggccucagacGCCCUGGaGCaggCCg -3'
miRNA:   3'- ggCU-GGUCCUgCGG---------------CGGGACC-CGa--GG- -5'
28334 3' -62.9 NC_005946.1 + 22192 0.68 0.414933
Target:  5'- gCGGCUAcccucGGGCugGCUGCCCUGGccgcggccGCUCCc -3'
miRNA:   3'- gGCUGGU-----CCUG--CGGCGGGACC--------CGAGG- -5'
28334 3' -62.9 NC_005946.1 + 24946 0.66 0.551604
Target:  5'- cCCGugCuagcGGGAgCGaucaUGCUCaGGGCUCCg -3'
miRNA:   3'- -GGCugG----UCCU-GCg---GCGGGaCCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 26353 0.75 0.155345
Target:  5'- uUGACCAGGACGUCGgguacGGGCUCCu -3'
miRNA:   3'- gGCUGGUCCUGCGGCggga-CCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 31479 0.66 0.541967
Target:  5'- aCCGuCCAGGACGguguacCUGCCCaUGGccaGCUUg -3'
miRNA:   3'- -GGCuGGUCCUGC------GGCGGG-ACC---CGAGg -5'
28334 3' -62.9 NC_005946.1 + 35956 0.67 0.504036
Target:  5'- cCCGcggcccuuGCCAcGGcCGCCGCCa-GGGC-CCu -3'
miRNA:   3'- -GGC--------UGGU-CCuGCGGCGGgaCCCGaGG- -5'
28334 3' -62.9 NC_005946.1 + 40104 0.69 0.382088
Target:  5'- cCUGACgGGGACccuGCCGUacucUUUGGGCUCg -3'
miRNA:   3'- -GGCUGgUCCUG---CGGCG----GGACCCGAGg -5'
28334 3' -62.9 NC_005946.1 + 48491 0.66 0.561291
Target:  5'- cCUGAcCCAGGAC-CC-UCCUgaggaagaugaGGGCUCCc -3'
miRNA:   3'- -GGCU-GGUCCUGcGGcGGGA-----------CCCGAGG- -5'
28334 3' -62.9 NC_005946.1 + 50040 0.66 0.551604
Target:  5'- --cACCGGGACaguaGCCGCUCUuggccaagugaGGGCUgCg -3'
miRNA:   3'- ggcUGGUCCUG----CGGCGGGA-----------CCCGAgG- -5'
28334 3' -62.9 NC_005946.1 + 56345 0.75 0.167231
Target:  5'- gCCGccaGCCuggAGGACGCUGCCCUGGuccucGCgUCCa -3'
miRNA:   3'- -GGC---UGG---UCCUGCGGCGGGACC-----CG-AGG- -5'
28334 3' -62.9 NC_005946.1 + 59653 0.68 0.398294
Target:  5'- aCgGGCCugGGGACGuaGCCCaGGGCcaCCg -3'
miRNA:   3'- -GgCUGG--UCCUGCggCGGGaCCCGa-GG- -5'
28334 3' -62.9 NC_005946.1 + 59990 0.76 0.142095
Target:  5'- gCCGGCCAcGGggcccgcguaaccguACGCgGCCCUGGGuCUCg -3'
miRNA:   3'- -GGCUGGU-CC---------------UGCGgCGGGACCC-GAGg -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.