miRNA display CGI


Results 1 - 16 of 16 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
21750 3' -55.4 NC_004813.1 + 48260 0.66 0.736333
Target:  5'- gCAGGCGGcagaaagugcaGCCUCaGCaaAGCAGUCagaggaUGCg -3'
miRNA:   3'- gGUCUGCC-----------CGGAGaCG--UCGUUAG------ACG- -5'
21750 3' -55.4 NC_004813.1 + 28924 0.66 0.736333
Target:  5'- aCGGAcauccCGGGCgUaCUGCAGUuucuGUCUGa -3'
miRNA:   3'- gGUCU-----GCCCGgA-GACGUCGu---UAGACg -5'
21750 3' -55.4 NC_004813.1 + 34640 0.66 0.725779
Target:  5'- -uGGGgGGGCUcgCUGUGGCA--CUGCa -3'
miRNA:   3'- ggUCUgCCCGGa-GACGUCGUuaGACG- -5'
21750 3' -55.4 NC_004813.1 + 3426 0.66 0.715131
Target:  5'- gCCAGcACGGuagccggguuaGCCUCUGCuaugaauucAGC-GUUUGCa -3'
miRNA:   3'- -GGUC-UGCC-----------CGGAGACG---------UCGuUAGACG- -5'
21750 3' -55.4 NC_004813.1 + 34497 0.66 0.693602
Target:  5'- gCAuGACGGGUgaacgguuguuCUCUGUGGUggUCcgGCa -3'
miRNA:   3'- gGU-CUGCCCG-----------GAGACGUCGuuAGa-CG- -5'
21750 3' -55.4 NC_004813.1 + 4158 0.66 0.693602
Target:  5'- gCCuGACGGGCaaugCUGCgaagGGCGuuuucCUGCu -3'
miRNA:   3'- -GGuCUGCCCGga--GACG----UCGUua---GACG- -5'
21750 3' -55.4 NC_004813.1 + 37016 0.66 0.682742
Target:  5'- aUCAGA--GGUaaugCUCUGCGGCuguUCUGCa -3'
miRNA:   3'- -GGUCUgcCCG----GAGACGUCGuu-AGACG- -5'
21750 3' -55.4 NC_004813.1 + 39712 0.66 0.682742
Target:  5'- uCUGGACaGGGCCagcucacgcUCUGUuuuugucagGGCAcUCUGCu -3'
miRNA:   3'- -GGUCUG-CCCGG---------AGACG---------UCGUuAGACG- -5'
21750 3' -55.4 NC_004813.1 + 52644 0.67 0.660891
Target:  5'- gCAGuACGGGgucggaCCgcuaUGCAGCGAaCUGCa -3'
miRNA:   3'- gGUC-UGCCC------GGag--ACGUCGUUaGACG- -5'
21750 3' -55.4 NC_004813.1 + 49817 0.67 0.627938
Target:  5'- gUCGGACcGGUa--UGCAGCGAaCUGCa -3'
miRNA:   3'- -GGUCUGcCCGgagACGUCGUUaGACG- -5'
21750 3' -55.4 NC_004813.1 + 37442 0.68 0.560217
Target:  5'- uCCGGGCGGGCUacuuuuuUCUGgccgacucugcauCAGCGAUCaGUu -3'
miRNA:   3'- -GGUCUGCCCGG-------AGAC-------------GUCGUUAGaCG- -5'
21750 3' -55.4 NC_004813.1 + 40865 0.7 0.45823
Target:  5'- gCCAGAUaGGGCCggaggCgGCAgGCAGUCUuguGCa -3'
miRNA:   3'- -GGUCUG-CCCGGa----GaCGU-CGUUAGA---CG- -5'
21750 3' -55.4 NC_004813.1 + 38973 0.71 0.410124
Target:  5'- uUCuGGCGGcGCUUCUgGCAGCAAuauuUCUGUu -3'
miRNA:   3'- -GGuCUGCC-CGGAGA-CGUCGUU----AGACG- -5'
21750 3' -55.4 NC_004813.1 + 33281 0.72 0.38281
Target:  5'- cUCAGGCGGucgcuGCCUCUGaCGGUAAUaagGCa -3'
miRNA:   3'- -GGUCUGCC-----CGGAGAC-GUCGUUAga-CG- -5'
21750 3' -55.4 NC_004813.1 + 39423 0.72 0.365285
Target:  5'- gCCAGACGGGacugCUCaaCGGCAAgCUGCu -3'
miRNA:   3'- -GGUCUGCCCg---GAGacGUCGUUaGACG- -5'
21750 3' -55.4 NC_004813.1 + 38920 1.14 0.00043
Target:  5'- gCCAGACGGGCCUCUGCAGCAAUCUGCa -3'
miRNA:   3'- -GGUCUGCCCGGAGACGUCGUUAGACG- -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.