miRNA display CGI


Results 1 - 20 of 44 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
25031 3' -45.5 NC_005336.1 + 128703 0.67 0.999821
Target:  5'- -gAACAGUaugcuACUCACacagUCGCUC-CUCg -3'
miRNA:   3'- uaUUGUCAau---UGAGUG----AGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 136979 0.76 0.926269
Target:  5'- -cAACAGgcAACUCGCUCGCUCg--- -3'
miRNA:   3'- uaUUGUCaaUUGAGUGAGUGAGagag -5'
25031 3' -45.5 NC_005336.1 + 137842 0.7 0.994908
Target:  5'- uUAACAGguuaaUCACUCACUCacaCUCa -3'
miRNA:   3'- uAUUGUCaauugAGUGAGUGAGa--GAG- -5'
25031 3' -45.5 NC_005336.1 + 136835 0.7 0.997444
Target:  5'- --uACcGUUGACUCACgCACUCaCUCg -3'
miRNA:   3'- uauUGuCAAUUGAGUGaGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 1737 0.69 0.998248
Target:  5'- uUAACuuaUUAACUCGucCUCuACUCUCUCa -3'
miRNA:   3'- uAUUGuc-AAUUGAGU--GAG-UGAGAGAG- -5'
25031 3' -45.5 NC_005336.1 + 137642 0.69 0.998828
Target:  5'- uUAGCgAGUUAaccACUCGCgCACUC-CUCa -3'
miRNA:   3'- uAUUG-UCAAU---UGAGUGaGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 77618 0.69 0.998828
Target:  5'- -aAGCGGUccACaaACUCGCUCUCUa -3'
miRNA:   3'- uaUUGUCAauUGagUGAGUGAGAGAg -5'
25031 3' -45.5 NC_005336.1 + 103214 0.68 0.999388
Target:  5'- --cGCAGgucgGGCUCAuCUCGCagCUCUCc -3'
miRNA:   3'- uauUGUCaa--UUGAGU-GAGUGa-GAGAG- -5'
25031 3' -45.5 NC_005336.1 + 136802 0.67 0.999821
Target:  5'- --cGCGG---ACUCACUCACUCUg-- -3'
miRNA:   3'- uauUGUCaauUGAGUGAGUGAGAgag -5'
25031 3' -45.5 NC_005336.1 + 137960 0.76 0.909954
Target:  5'- -gGACAGUUAACgagucgacagucgaCACUCACUCgCUCg -3'
miRNA:   3'- uaUUGUCAAUUGa-------------GUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 137090 0.76 0.907271
Target:  5'- -cAACuGUUAgcgcACUCGCUCACUCgCUCg -3'
miRNA:   3'- uaUUGuCAAU----UGAGUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 137490 0.76 0.907271
Target:  5'- uUAGCgAGUUAAC-CACUCGCUCaCUCa -3'
miRNA:   3'- uAUUG-UCAAUUGaGUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 136882 0.89 0.322381
Target:  5'- -cAACAGUcGACUCACUCACUCUCg- -3'
miRNA:   3'- uaUUGUCAaUUGAGUGAGUGAGAGag -5'
25031 3' -45.5 NC_005336.1 + 137318 0.85 0.512664
Target:  5'- -gAACAGUcAACUCGCUCACUCaCUCg -3'
miRNA:   3'- uaUUGUCAaUUGAGUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 2881 0.84 0.56741
Target:  5'- uUGACuGUUGACUUguuCUCACUCUCUCa -3'
miRNA:   3'- uAUUGuCAAUUGAGu--GAGUGAGAGAG- -5'
25031 3' -45.5 NC_005336.1 + 137252 0.83 0.600982
Target:  5'- -cGACAGUccACUCACUCACUCaCUCg -3'
miRNA:   3'- uaUUGUCAauUGAGUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 137123 0.82 0.634804
Target:  5'- -gAACAagucGUUAACUCACUCGCUCgCUCa -3'
miRNA:   3'- uaUUGU----CAAUUGAGUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 2725 0.81 0.679808
Target:  5'- cUAACAGUUGACUUguGCUCuuUCUCUCa -3'
miRNA:   3'- uAUUGUCAAUUGAG--UGAGugAGAGAG- -5'
25031 3' -45.5 NC_005336.1 + 138181 0.81 0.679808
Target:  5'- -gAACGGcgAACUCGCUCGCUCgCUCg -3'
miRNA:   3'- uaUUGUCaaUUGAGUGAGUGAGaGAG- -5'
25031 3' -45.5 NC_005336.1 + 138101 0.8 0.766745
Target:  5'- uUAACaAGUUAaccACUCACUCGCUCgCUCg -3'
miRNA:   3'- uAUUG-UCAAU---UGAGUGAGUGAGaGAG- -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.