miRNA display CGI


Results 1 - 20 of 26 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
24109 3' -64.3 NC_005262.1 + 53315 0.66 0.335711
Target:  5'- uGGCGcUGcugCUGGUcgCCGCUGUCgUCGCg -3'
miRNA:   3'- -UCGC-ACa--GACCGa-GGCGGCGGgGGCG- -5'
24109 3' -64.3 NC_005262.1 + 57447 0.66 0.335711
Target:  5'- cGCGUGUUcGaGCUCUGCCGCgaCUacaaGCg -3'
miRNA:   3'- uCGCACAGaC-CGAGGCGGCGg-GGg---CG- -5'
24109 3' -64.3 NC_005262.1 + 61116 0.66 0.335711
Target:  5'- gAGCGUGagcuugCUacGGCggccaggaCGCCGCCCggcgCCGCg -3'
miRNA:   3'- -UCGCACa-----GA--CCGag------GCGGCGGG----GGCG- -5'
24109 3' -64.3 NC_005262.1 + 12739 0.66 0.335711
Target:  5'- cGCGUcaucgGUCagUGGCUgCGCCuCCCgCUGCa -3'
miRNA:   3'- uCGCA-----CAG--ACCGAgGCGGcGGG-GGCG- -5'
24109 3' -64.3 NC_005262.1 + 13511 0.66 0.32819
Target:  5'- cGCGgccGUCacgGGCUCgGCCggcgcgggcgcGCCCUCGUu -3'
miRNA:   3'- uCGCa--CAGa--CCGAGgCGG-----------CGGGGGCG- -5'
24109 3' -64.3 NC_005262.1 + 49484 0.66 0.313525
Target:  5'- cAGC---UCggcGGUUCCGCCGCCcuCCCGUc -3'
miRNA:   3'- -UCGcacAGa--CCGAGGCGGCGG--GGGCG- -5'
24109 3' -64.3 NC_005262.1 + 16338 0.67 0.292467
Target:  5'- cGCGauccUCUGGCUCgGCgcgcugaucggCGCCgCCGCg -3'
miRNA:   3'- uCGCac--AGACCGAGgCG-----------GCGGgGGCG- -5'
24109 3' -64.3 NC_005262.1 + 42654 0.67 0.285697
Target:  5'- cGCGggaaagagcUCUGGCUCUGCgaGCCguggcgCCCGCa -3'
miRNA:   3'- uCGCac-------AGACCGAGGCGg-CGG------GGGCG- -5'
24109 3' -64.3 NC_005262.1 + 11917 0.67 0.259855
Target:  5'- cGGCGgcGUC-GGCUCgGUCGUgCUCGCg -3'
miRNA:   3'- -UCGCa-CAGaCCGAGgCGGCGgGGGCG- -5'
24109 3' -64.3 NC_005262.1 + 41929 0.68 0.253699
Target:  5'- cGCG-GUC-GGCUUcagCGCCGaUCCCUGCa -3'
miRNA:   3'- uCGCaCAGaCCGAG---GCGGC-GGGGGCG- -5'
24109 3' -64.3 NC_005262.1 + 49767 0.68 0.224706
Target:  5'- cGCGcccgaGGCUCCgGCCGCUgCCGCg -3'
miRNA:   3'- uCGCacagaCCGAGG-CGGCGGgGGCG- -5'
24109 3' -64.3 NC_005262.1 + 2326 0.68 0.224706
Target:  5'- cGCGaagaUGUCgucuaGcGCUUCGCCGUCCgCCGCc -3'
miRNA:   3'- uCGC----ACAGa----C-CGAGGCGGCGGG-GGCG- -5'
24109 3' -64.3 NC_005262.1 + 27959 0.68 0.224706
Target:  5'- gGGCG-GUCgcGGCgccgaCGCCGCUCCgGCc -3'
miRNA:   3'- -UCGCaCAGa-CCGag---GCGGCGGGGgCG- -5'
24109 3' -64.3 NC_005262.1 + 54823 0.69 0.210771
Target:  5'- cGCGgGguuggCUGGCUCCggauggguggagugcGUCGCCCgCGCg -3'
miRNA:   3'- uCGCaCa----GACCGAGG---------------CGGCGGGgGCG- -5'
24109 3' -64.3 NC_005262.1 + 3180 0.7 0.179614
Target:  5'- cAGCGUGcgcaUGGCgUUCGCCGUgCCCUGUa -3'
miRNA:   3'- -UCGCACag--ACCG-AGGCGGCG-GGGGCG- -5'
24109 3' -64.3 NC_005262.1 + 17998 0.7 0.170749
Target:  5'- uAGCG-GUcCUGGaucagcacgCCGCCGCCCuucgCCGCg -3'
miRNA:   3'- -UCGCaCA-GACCga-------GGCGGCGGG----GGCG- -5'
24109 3' -64.3 NC_005262.1 + 7844 0.71 0.149892
Target:  5'- cGGCGUGaccaugaUCUGaCggCCGCCGCCCUCGa -3'
miRNA:   3'- -UCGCAC-------AGACcGa-GGCGGCGGGGGCg -5'
24109 3' -64.3 NC_005262.1 + 22132 0.71 0.139091
Target:  5'- cGGCaaucGUCUGGCcgCCGCgGCUgCCCGCa -3'
miRNA:   3'- -UCGca--CAGACCGa-GGCGgCGG-GGGCG- -5'
24109 3' -64.3 NC_005262.1 + 42143 0.72 0.128338
Target:  5'- cGCGUGUCcuucaucaccaucUGGCcgucgCCGUCGCCgUCGCa -3'
miRNA:   3'- uCGCACAG-------------ACCGa----GGCGGCGGgGGCG- -5'
24109 3' -64.3 NC_005262.1 + 46541 0.72 0.125363
Target:  5'- cAGCGc----GGCgccggCCGCCGCUCCCGCg -3'
miRNA:   3'- -UCGCacagaCCGa----GGCGGCGGGGGCG- -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.