miRNA display CGI


Results 1 - 15 of 15 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
12813 3' -49.1 NC_003387.1 + 26668 0.66 0.97781
Target:  5'- gCCUCGcGAAUGUGGUAcucgaugugcGGCGccgucGGCGGGu -3'
miRNA:   3'- -GGAGCcCUUGCAUUAU----------CUGC-----UUGCCC- -5'
12813 3' -49.1 NC_003387.1 + 14244 0.66 0.97781
Target:  5'- gCUCGGGAuCGggccgacUGGuaaaGAACGGGc -3'
miRNA:   3'- gGAGCCCUuGCauu----AUCug--CUUGCCC- -5'
12813 3' -49.1 NC_003387.1 + 26577 0.66 0.971898
Target:  5'- uCCUCGGGGucaggccGCGcGAgcGGCG-ACGGa -3'
miRNA:   3'- -GGAGCCCU-------UGCaUUauCUGCuUGCCc -5'
12813 3' -49.1 NC_003387.1 + 34817 0.67 0.969044
Target:  5'- -gUCGGGGGCGUcgagAAUGuucgucGACGGcccgcGCGGGc -3'
miRNA:   3'- ggAGCCCUUGCA----UUAU------CUGCU-----UGCCC- -5'
12813 3' -49.1 NC_003387.1 + 2697 0.67 0.961978
Target:  5'- aCCUCGGcGAGguUGUGcucGGCGAcGCGGGc -3'
miRNA:   3'- -GGAGCC-CUU--GCAUuauCUGCU-UGCCC- -5'
12813 3' -49.1 NC_003387.1 + 9113 0.67 0.958054
Target:  5'- gCUCGGGcacuAUGUGcu---CGAACGGGa -3'
miRNA:   3'- gGAGCCCu---UGCAUuaucuGCUUGCCC- -5'
12813 3' -49.1 NC_003387.1 + 30692 0.67 0.953863
Target:  5'- aCCggCGGGGGCGUuuucguGCGccuGCGGGg -3'
miRNA:   3'- -GGa-GCCCUUGCAuuauc-UGCu--UGCCC- -5'
12813 3' -49.1 NC_003387.1 + 26761 0.68 0.949397
Target:  5'- aCCUCGGcGAACGgguUAG-CGAGCa-- -3'
miRNA:   3'- -GGAGCC-CUUGCauuAUCuGCUUGccc -5'
12813 3' -49.1 NC_003387.1 + 47657 0.68 0.944653
Target:  5'- gCCUCGGGcAgGUAAUcGAaacaauCGcAACGGGa -3'
miRNA:   3'- -GGAGCCCuUgCAUUAuCU------GC-UUGCCC- -5'
12813 3' -49.1 NC_003387.1 + 48750 0.69 0.922833
Target:  5'- uCCUCGGGAACGUc----ACGcACGcGGu -3'
miRNA:   3'- -GGAGCCCUUGCAuuaucUGCuUGC-CC- -5'
12813 3' -49.1 NC_003387.1 + 38798 0.69 0.903463
Target:  5'- gCCUCGGcGGCGUcAUGGugcCGAuCGGGc -3'
miRNA:   3'- -GGAGCCcUUGCAuUAUCu--GCUuGCCC- -5'
12813 3' -49.1 NC_003387.1 + 30125 0.71 0.821534
Target:  5'- aCCUUGGG--CG-AGUAGACGAuggcgaacccGCGGGc -3'
miRNA:   3'- -GGAGCCCuuGCaUUAUCUGCU----------UGCCC- -5'
12813 3' -49.1 NC_003387.1 + 52326 0.72 0.761933
Target:  5'- gCCUCGGGggUGcgAGUGcacucGACGAgAUGGGc -3'
miRNA:   3'- -GGAGCCCuuGCa-UUAU-----CUGCU-UGCCC- -5'
12813 3' -49.1 NC_003387.1 + 26612 0.73 0.708361
Target:  5'- gCCUCGGcGGCGaAGcUGGACGGcauGCGGGg -3'
miRNA:   3'- -GGAGCCcUUGCaUU-AUCUGCU---UGCCC- -5'
12813 3' -49.1 NC_003387.1 + 31792 1.14 0.003027
Target:  5'- cCCUCGGGAACGUAAUAGACGAACGGGu -3'
miRNA:   3'- -GGAGCCCUUGCAUUAUCUGCUUGCCC- -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.