miRNA display CGI


Results 1 - 18 of 18 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
28841 3' -59.8 NC_006146.1 + 121325 0.66 0.754922
Target:  5'- ----aCAGCCCcaccCUGgccucagcgCUGGGCCUCAg -3'
miRNA:   3'- gucagGUCGGGa---GACa--------GACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 90888 0.66 0.754922
Target:  5'- gAGcCUGGCCCUCaacCUGGGCC-CAu -3'
miRNA:   3'- gUCaGGUCGGGAGacaGACCCGGaGU- -5'
28841 3' -59.8 NC_006146.1 + 20451 0.66 0.745488
Target:  5'- --aUCCAGCCC-CUGUCc-GGCUUCu -3'
miRNA:   3'- gucAGGUCGGGaGACAGacCCGGAGu -5'
28841 3' -59.8 NC_006146.1 + 103155 0.66 0.726344
Target:  5'- aGGUCUuuGGCuCCUCcGUCUGGGCg--- -3'
miRNA:   3'- gUCAGG--UCG-GGAGaCAGACCCGgagu -5'
28841 3' -59.8 NC_006146.1 + 12338 0.67 0.687192
Target:  5'- uCAGUCCccucGCCC-----CUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGu---CGGGagacaGACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 154247 0.67 0.687192
Target:  5'- uUAG-CCAGgCCgCUGg-UGGGCCUCAg -3'
miRNA:   3'- -GUCaGGUCgGGaGACagACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 27729 0.67 0.687192
Target:  5'- uCAGUCCccucGCCC-----CUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGu---CGGGagacaGACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 24651 0.67 0.687192
Target:  5'- uCAGUCCccucGCCC-----CUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGu---CGGGagacaGACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 21573 0.67 0.687192
Target:  5'- uCAGUCCccucGCCC-----CUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGu---CGGGagacaGACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 18495 0.67 0.687192
Target:  5'- uCAGUCCccucGCCC-----CUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGu---CGGGagacaGACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 15417 0.67 0.687192
Target:  5'- uCAGUCCccucGCCC-----CUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGu---CGGGagacaGACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 159999 0.67 0.66732
Target:  5'- gGGUCUGGCCUcCUGUggaGGGCCUUg -3'
miRNA:   3'- gUCAGGUCGGGaGACAga-CCCGGAGu -5'
28841 3' -59.8 NC_006146.1 + 125930 0.68 0.617298
Target:  5'- gGGUCCGGCCaccgCgGUCgagucccccgGGGCCUCc -3'
miRNA:   3'- gUCAGGUCGGga--GaCAGa---------CCCGGAGu -5'
28841 3' -59.8 NC_006146.1 + 94618 0.69 0.557686
Target:  5'- -cGUCCAGCCCac-GUaCUGGGCCg-- -3'
miRNA:   3'- guCAGGUCGGGagaCA-GACCCGGagu -5'
28841 3' -59.8 NC_006146.1 + 52994 0.72 0.393286
Target:  5'- -cGUCUcgaGGCCCcucuUCUGgccCUGGGCCUCAc -3'
miRNA:   3'- guCAGG---UCGGG----AGACa--GACCCGGAGU- -5'
28841 3' -59.8 NC_006146.1 + 109171 0.73 0.338329
Target:  5'- uCGGUcCCGGCCCUUaGUCUGaGGCC-CAg -3'
miRNA:   3'- -GUCA-GGUCGGGAGaCAGAC-CCGGaGU- -5'
28841 3' -59.8 NC_006146.1 + 83118 0.74 0.330948
Target:  5'- ---cCCAGCCCUgUGUCUGGGacccCCUCu -3'
miRNA:   3'- gucaGGUCGGGAgACAGACCC----GGAGu -5'
28841 3' -59.8 NC_006146.1 + 61711 1.08 0.001513
Target:  5'- cCAGUCCAGCCCUCUGUCUGGGCCUCAg -3'
miRNA:   3'- -GUCAGGUCGGGAGACAGACCCGGAGU- -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.