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
23159 3' -54 NC_005178.1 + 3010 0.68 0.547277
Target:  5'- aGCCU-GGAGCgcuuccUGGACCAGGcCGagCg -3'
miRNA:   3'- gCGGAaCCUCG------ACUUGGUCCuGUagG- -5'
23159 3' -54 NC_005178.1 + 4057 0.66 0.669821
Target:  5'- uCGCCcgcGAGCUGGaggaauuccacggcgACCAGGuggccgugggcuacgACAUCCa -3'
miRNA:   3'- -GCGGaacCUCGACU---------------UGGUCC---------------UGUAGG- -5'
23159 3' -54 NC_005178.1 + 4932 0.66 0.660723
Target:  5'- uCGCCgaGGAaCUGGccGCCAGcGGCcgCCc -3'
miRNA:   3'- -GCGGaaCCUcGACU--UGGUC-CUGuaGG- -5'
23159 3' -54 NC_005178.1 + 5328 0.69 0.471492
Target:  5'- gCGCCUgaaccUGGAGCUGuacACCGGuGCggCCc -3'
miRNA:   3'- -GCGGA-----ACCUCGACu--UGGUCcUGuaGG- -5'
23159 3' -54 NC_005178.1 + 5950 0.69 0.482012
Target:  5'- gGCCUggacGGGGC-GGACCAGGucCAggCCg -3'
miRNA:   3'- gCGGAa---CCUCGaCUUGGUCCu-GUa-GG- -5'
23159 3' -54 NC_005178.1 + 6476 0.67 0.592309
Target:  5'- uGCC--GGAGCUGGugagccaguucgGCCAGGucACcgCCg -3'
miRNA:   3'- gCGGaaCCUCGACU------------UGGUCC--UGuaGG- -5'
23159 3' -54 NC_005178.1 + 6696 0.77 0.165419
Target:  5'- gCGCC-UGGAccgggcggccucacuGCUGAGCCAGGAgGUgCCg -3'
miRNA:   3'- -GCGGaACCU---------------CGACUUGGUCCUgUA-GG- -5'
23159 3' -54 NC_005178.1 + 8157 0.68 0.547277
Target:  5'- uCGCCcgUGGGGac-GACCAGGuCGUUCg -3'
miRNA:   3'- -GCGGa-ACCUCgacUUGGUCCuGUAGG- -5'
23159 3' -54 NC_005178.1 + 8488 0.67 0.637912
Target:  5'- aCGCCUcUGGAGCUGggUUcaAGuACA-CCg -3'
miRNA:   3'- -GCGGA-ACCUCGACuuGG--UCcUGUaGG- -5'
23159 3' -54 NC_005178.1 + 8899 0.68 0.547277
Target:  5'- cCGCgUUGGAGaCUGAugCGcugaaguucuuGGACGguUCCu -3'
miRNA:   3'- -GCGgAACCUC-GACUugGU-----------CCUGU--AGG- -5'
23159 3' -54 NC_005178.1 + 11784 0.7 0.460055
Target:  5'- cCGCCgcaGGccGGCcugcacaUGGACCAGGACAcCCu -3'
miRNA:   3'- -GCGGaa-CC--UCG-------ACUUGGUCCUGUaGG- -5'
23159 3' -54 NC_005178.1 + 12154 0.67 0.642479
Target:  5'- gCGCCUaccgcgacguccUGGAGCagucggcggcacaacUGAAgacgguCCAGGACA-CCa -3'
miRNA:   3'- -GCGGA------------ACCUCG---------------ACUU------GGUCCUGUaGG- -5'
23159 3' -54 NC_005178.1 + 13220 0.67 0.637912
Target:  5'- cCGCUUUGaacGGCUGggUCGGGGCcggcGUCg -3'
miRNA:   3'- -GCGGAACc--UCGACuuGGUCCUG----UAGg -5'
23159 3' -54 NC_005178.1 + 13526 0.68 0.547277
Target:  5'- uGCCgauagGGaAGCUGcguACCAGGGCuuUCUg -3'
miRNA:   3'- gCGGaa---CC-UCGACu--UGGUCCUGu-AGG- -5'
23159 3' -54 NC_005178.1 + 14449 0.67 0.592309
Target:  5'- gCGCCggggugccGGAGCUGGucaggGCCAGGcugaGCuUCCc -3'
miRNA:   3'- -GCGGaa------CCUCGACU-----UGGUCC----UGuAGG- -5'
23159 3' -54 NC_005178.1 + 14641 0.67 0.603681
Target:  5'- uCGCCgcgcUGGAGUUcuACCAGGAgCGcgCCg -3'
miRNA:   3'- -GCGGa---ACCUCGAcuUGGUCCU-GUa-GG- -5'
23159 3' -54 NC_005178.1 + 15041 0.68 0.558448
Target:  5'- uGCCUggugUGGGGCguUGAGgcgguccaguuCCAGGAguUCCu -3'
miRNA:   3'- gCGGA----ACCUCG--ACUU-----------GGUCCUguAGG- -5'
23159 3' -54 NC_005178.1 + 15146 0.67 0.596854
Target:  5'- gGCCUU-GAGCUGcGCCucagucagggcggacAGGGCGauUCCg -3'
miRNA:   3'- gCGGAAcCUCGACuUGG---------------UCCUGU--AGG- -5'
23159 3' -54 NC_005178.1 + 15549 0.69 0.492644
Target:  5'- gGCCaaGGGGCUGAccccaGCCAagcuGGcucACAUCCu -3'
miRNA:   3'- gCGGaaCCUCGACU-----UGGU----CC---UGUAGG- -5'
23159 3' -54 NC_005178.1 + 15920 0.69 0.482012
Target:  5'- uCGUCcgGGAGCUGAGCCGccgaguaaccGGcCAUCUu -3'
miRNA:   3'- -GCGGaaCCUCGACUUGGU----------CCuGUAGG- -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.