miRNA display CGI


Results 41 - 57 of 57 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
13242 3' -61.5 NC_003401.1 + 49704 0.8 0.09242
Target:  5'- aCCCucGUGCCccugccuuaucucgUgcggGGCCAGGCGCGCGGc -3'
miRNA:   3'- -GGGuuCGCGG--------------Aa---CCGGUCCGCGCGCC- -5'
13242 3' -61.5 NC_003401.1 + 132677 0.81 0.081907
Target:  5'- cCCgGGGCGCCUcGGCgGGGCccgGCGCGGg -3'
miRNA:   3'- -GGgUUCGCGGAaCCGgUCCG---CGCGCC- -5'
13242 3' -61.5 NC_003401.1 + 14068 0.69 0.474103
Target:  5'- aCCCucuAGCGCCc---CCGGGCGUccGCGGu -3'
miRNA:   3'- -GGGu--UCGCGGaaccGGUCCGCG--CGCC- -5'
13242 3' -61.5 NC_003401.1 + 117937 0.68 0.511131
Target:  5'- gCCCAaaucuGGgGCCcaUGGU--GGCGCGCGGc -3'
miRNA:   3'- -GGGU-----UCgCGGa-ACCGguCCGCGCGCC- -5'
13242 3' -61.5 NC_003401.1 + 128358 0.68 0.511131
Target:  5'- gCCAAGUGUCagggcGGCCaAGGUGCcCGGg -3'
miRNA:   3'- gGGUUCGCGGaa---CCGG-UCCGCGcGCC- -5'
13242 3' -61.5 NC_003401.1 + 15786 0.66 0.667334
Target:  5'- gCCCGAGgGaCaggggGGCUaucaGGGCGCGaCGGu -3'
miRNA:   3'- -GGGUUCgC-Ggaa--CCGG----UCCGCGC-GCC- -5'
13242 3' -61.5 NC_003401.1 + 72475 0.66 0.657473
Target:  5'- gCCCGcGCGUCacGGCCuuGGC-CGUGGc -3'
miRNA:   3'- -GGGUuCGCGGaaCCGGu-CCGcGCGCC- -5'
13242 3' -61.5 NC_003401.1 + 9361 0.66 0.647592
Target:  5'- cCCCuAGCGCCggcgcccuacUGGCCGGGaagaaGCGa -3'
miRNA:   3'- -GGGuUCGCGGa---------ACCGGUCCgcg--CGCc -5'
13242 3' -61.5 NC_003401.1 + 63945 0.67 0.608028
Target:  5'- aCCAAaCGCggucagUGGCgCGGGCGCGCu- -3'
miRNA:   3'- gGGUUcGCGga----ACCG-GUCCGCGCGcc -5'
13242 3' -61.5 NC_003401.1 + 30343 0.66 0.647592
Target:  5'- aCCCAGGaGCga-GGCCAGGUugagGCGCcGGu -3'
miRNA:   3'- -GGGUUCgCGgaaCCGGUCCG----CGCG-CC- -5'
13242 3' -61.5 NC_003401.1 + 132395 0.67 0.588319
Target:  5'- gCCGGGcCGCUUUcgguucgcggGGCCGGGgGUcccGCGGg -3'
miRNA:   3'- gGGUUC-GCGGAA----------CCGGUCCgCG---CGCC- -5'
13242 3' -61.5 NC_003401.1 + 79033 0.67 0.588319
Target:  5'- --gAAGUGCCacaugaaaccgUGGCCGGGUGCGUa- -3'
miRNA:   3'- gggUUCGCGGa----------ACCGGUCCGCGCGcc -5'
13242 3' -61.5 NC_003401.1 + 32321 0.67 0.585372
Target:  5'- gCCCGccuaaaagggcgguGGUGCCg-GGCgGuGGCGCGCGu -3'
miRNA:   3'- -GGGU--------------UCGCGGaaCCGgU-CCGCGCGCc -5'
13242 3' -61.5 NC_003401.1 + 74944 0.67 0.578506
Target:  5'- gCCAAGCGC-----CCAGGCG-GCGGg -3'
miRNA:   3'- gGGUUCGCGgaaccGGUCCGCgCGCC- -5'
13242 3' -61.5 NC_003401.1 + 123358 0.67 0.578506
Target:  5'- -aUAGGCGgUUUGGCCGcGGCGCGgccccUGGa -3'
miRNA:   3'- ggGUUCGCgGAACCGGU-CCGCGC-----GCC- -5'
13242 3' -61.5 NC_003401.1 + 132449 0.67 0.568729
Target:  5'- cCCCGGGUGCCgcuccGCCGGGC-C-CGGc -3'
miRNA:   3'- -GGGUUCGCGGaac--CGGUCCGcGcGCC- -5'
13242 3' -61.5 NC_003401.1 + 105831 1.1 0.000692
Target:  5'- gCCCAAGCGCCUUGGCCAGGCGCGCGGc -3'
miRNA:   3'- -GGGUUCGCGGAACCGGUCCGCGCGCC- -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.