miRNA display CGI


Results 1 - 20 of 32 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
28523 3' -61.7 NC_005946.1 + 97185 0.74 0.195759
Target:  5'- uGUGGUCCCcgugagaGGGCCUCCacUCggAGGGCCUg -3'
miRNA:   3'- -CACCGGGG-------UCCGGAGGa-AG--UCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 69952 0.73 0.216454
Target:  5'- -cGGCCCUugccacGGCCgCCgcCAGGGCCCu -3'
miRNA:   3'- caCCGGGGu-----CCGGaGGaaGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 57400 0.72 0.25009
Target:  5'- uUGGaCCCAG-UCUCCUgaccCAGGACCCu -3'
miRNA:   3'- cACCgGGGUCcGGAGGAa---GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 49823 0.72 0.262225
Target:  5'- aUGGCCCuCAGGCuCUCCagggUgAGGgugGCCCu -3'
miRNA:   3'- cACCGGG-GUCCG-GAGGa---AgUCC---UGGG- -5'
28523 3' -61.7 NC_005946.1 + 64055 0.71 0.274834
Target:  5'- -cGGCCCCuGGUCgCCcaUGGGACCCc -3'
miRNA:   3'- caCCGGGGuCCGGaGGaaGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 22968 0.71 0.281319
Target:  5'- aUGGaaaacgcuuaCUCCAGGCacagggaggCCUUCAGGGCCCc -3'
miRNA:   3'- cACC----------GGGGUCCGga-------GGAAGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 78094 0.71 0.281319
Target:  5'- uUGuCCUCGGGCCUCCcgucccUCAGGcACCCc -3'
miRNA:   3'- cACcGGGGUCCGGAGGa-----AGUCC-UGGG- -5'
28523 3' -61.7 NC_005946.1 + 86086 0.71 0.301499
Target:  5'- uGUGGCCCCAGGacaggcUCAGG-CCCa -3'
miRNA:   3'- -CACCGGGGUCCggaggaAGUCCuGGG- -5'
28523 3' -61.7 NC_005946.1 + 29540 0.71 0.301499
Target:  5'- -cGGUCCCagcgGGGCg-CCUggaucUCAGGGCCCg -3'
miRNA:   3'- caCCGGGG----UCCGgaGGA-----AGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 103390 0.7 0.322778
Target:  5'- -cGGCCUCAGGUacUCUUCcaaggguaAGGACCCu -3'
miRNA:   3'- caCCGGGGUCCGgaGGAAG--------UCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 103656 0.7 0.330116
Target:  5'- -cGGCCCacagGGGCC-CCgacCAGGACgCCg -3'
miRNA:   3'- caCCGGGg---UCCGGaGGaa-GUCCUG-GG- -5'
28523 3' -61.7 NC_005946.1 + 33127 0.7 0.330116
Target:  5'- -gGGCCugCCGGGCUUCUUUgAGGGCgCu -3'
miRNA:   3'- caCCGG--GGUCCGGAGGAAgUCCUGgG- -5'
28523 3' -61.7 NC_005946.1 + 69905 0.7 0.337576
Target:  5'- aGUGGCCuCCAgGGCCUCggcguccaugUCAGGccucuuuacGCCCg -3'
miRNA:   3'- -CACCGG-GGU-CCGGAGga--------AGUCC---------UGGG- -5'
28523 3' -61.7 NC_005946.1 + 83449 0.69 0.360686
Target:  5'- -cGGUCCUAGGgUUCCUggUGGGAUCCc -3'
miRNA:   3'- caCCGGGGUCCgGAGGAa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 83659 0.69 0.360686
Target:  5'- -cGGUCCUAGGgUUCCUggUGGGAUCCc -3'
miRNA:   3'- caCCGGGGUCCgGAGGAa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 70375 0.69 0.393174
Target:  5'- -aGGCCCUcgAGuCCUCCagcCAGGACCUc -3'
miRNA:   3'- caCCGGGG--UCcGGAGGaa-GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 93897 0.69 0.401588
Target:  5'- -aGGCCUgCAGGCggUUCCUguuuuGGACCCa -3'
miRNA:   3'- caCCGGG-GUCCG--GAGGAagu--CCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 63602 0.68 0.410115
Target:  5'- cUGaCCCCugGGGCCcuuuggaCCcUCAGGACCCg -3'
miRNA:   3'- cACcGGGG--UCCGGa------GGaAGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 44447 0.68 0.44532
Target:  5'- cUGGCCgaCAGGaugCUCC-UCAGG-CCCg -3'
miRNA:   3'- cACCGGg-GUCCg--GAGGaAGUCCuGGG- -5'
28523 3' -61.7 NC_005946.1 + 82952 0.68 0.454382
Target:  5'- uUGGCCCgucaCAGGgUUCCUggUGGGAUCCc -3'
miRNA:   3'- cACCGGG----GUCCgGAGGAa-GUCCUGGG- -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.