miRNA display CGI


Results 1 - 20 of 48 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
23216 3' -50.5 NC_005259.1 + 61297 0.66 0.975714
Target:  5'- aCGCGAGCGGcugaucGGUGAAUguccGGAaaagcucugucuUGGCCa -3'
miRNA:   3'- gGCGCUUGCCa-----UCGCUUA----UCU------------GCUGG- -5'
23216 3' -50.5 NC_005259.1 + 8958 0.66 0.975714
Target:  5'- gCCGUGGACGGgcaccGUGccgGGACGuagguGCCa -3'
miRNA:   3'- -GGCGCUUGCCau---CGCuuaUCUGC-----UGG- -5'
23216 3' -50.5 NC_005259.1 + 44296 0.66 0.972916
Target:  5'- gCGCGAGCGGguuGCccucuuuGACGAgCg -3'
miRNA:   3'- gGCGCUUGCCau-CGcuuau--CUGCUgG- -5'
23216 3' -50.5 NC_005259.1 + 66457 0.66 0.972916
Target:  5'- gCCGuCGAACucggugacgcuGGUGGCG-GUGGucuCGAUCa -3'
miRNA:   3'- -GGC-GCUUG-----------CCAUCGCuUAUCu--GCUGG- -5'
23216 3' -50.5 NC_005259.1 + 6548 0.66 0.972916
Target:  5'- -gGCGAGCGGUgaagcugugcgcGGCGuGUcAGGCcGCCu -3'
miRNA:   3'- ggCGCUUGCCA------------UCGCuUA-UCUGcUGG- -5'
23216 3' -50.5 NC_005259.1 + 63727 0.66 0.969891
Target:  5'- cCUGCGcAGcCGGUAGCGAcaucucGGCGGgCa -3'
miRNA:   3'- -GGCGC-UU-GCCAUCGCUuau---CUGCUgG- -5'
23216 3' -50.5 NC_005259.1 + 64017 0.66 0.969891
Target:  5'- aCCGCGccCGaGgcGCGGcgAGGCcgguGACCg -3'
miRNA:   3'- -GGCGCuuGC-CauCGCUuaUCUG----CUGG- -5'
23216 3' -50.5 NC_005259.1 + 54512 0.66 0.969891
Target:  5'- gCgGCGAuguGgGGUGGCGggUcGAguaucCGGCCc -3'
miRNA:   3'- -GgCGCU---UgCCAUCGCuuAuCU-----GCUGG- -5'
23216 3' -50.5 NC_005259.1 + 6166 0.66 0.969891
Target:  5'- gCGcCGAACGGUcgaGGUGAccaAUGGGUGAUCu -3'
miRNA:   3'- gGC-GCUUGCCA---UCGCU---UAUCUGCUGG- -5'
23216 3' -50.5 NC_005259.1 + 47789 0.66 0.966632
Target:  5'- aUCGCGcAGCGGUccgacGGUGAGUcgcgAGACcucgcgGGCCa -3'
miRNA:   3'- -GGCGC-UUGCCA-----UCGCUUA----UCUG------CUGG- -5'
23216 3' -50.5 NC_005259.1 + 43979 0.66 0.966632
Target:  5'- aCCGaGGGCGGU-GCcGAUGGACG-CUg -3'
miRNA:   3'- -GGCgCUUGCCAuCGcUUAUCUGCuGG- -5'
23216 3' -50.5 NC_005259.1 + 29955 0.66 0.963131
Target:  5'- gUCGCGGcUGGUggGGCGGGcGG-UGACCg -3'
miRNA:   3'- -GGCGCUuGCCA--UCGCUUaUCuGCUGG- -5'
23216 3' -50.5 NC_005259.1 + 3093 0.66 0.963131
Target:  5'- gCCGCGcAGCGaugAGCG----GGCGGCCa -3'
miRNA:   3'- -GGCGC-UUGCca-UCGCuuauCUGCUGG- -5'
23216 3' -50.5 NC_005259.1 + 41590 0.66 0.962768
Target:  5'- gCGUGAGCGGUcGCGcgucgguguuucgGAUcgcgAGGCuGACCa -3'
miRNA:   3'- gGCGCUUGCCAuCGC-------------UUA----UCUG-CUGG- -5'
23216 3' -50.5 NC_005259.1 + 38319 0.67 0.959383
Target:  5'- uCUGUGucAUGGUGcccgaguugcGCGAGUAGACccuGACCu -3'
miRNA:   3'- -GGCGCu-UGCCAU----------CGCUUAUCUG---CUGG- -5'
23216 3' -50.5 NC_005259.1 + 46522 0.67 0.95538
Target:  5'- cCCGCGAGcCGGUcGgGGAUcgccgAGAucuggucgcCGACCg -3'
miRNA:   3'- -GGCGCUU-GCCAuCgCUUA-----UCU---------GCUGG- -5'
23216 3' -50.5 NC_005259.1 + 56483 0.67 0.95538
Target:  5'- gUCGCGAaaccguccucgACGGUGGCGAu--GAUucCCu -3'
miRNA:   3'- -GGCGCU-----------UGCCAUCGCUuauCUGcuGG- -5'
23216 3' -50.5 NC_005259.1 + 49984 0.67 0.951118
Target:  5'- gCGCGcACGGaucGCGugcGGACGGCUg -3'
miRNA:   3'- gGCGCuUGCCau-CGCuuaUCUGCUGG- -5'
23216 3' -50.5 NC_005259.1 + 20451 0.67 0.951118
Target:  5'- aCGaCGAGCcggGGUGGCuc--GGAUGACCg -3'
miRNA:   3'- gGC-GCUUG---CCAUCGcuuaUCUGCUGG- -5'
23216 3' -50.5 NC_005259.1 + 64897 0.67 0.951118
Target:  5'- gCCGCGugacacgagcGACGGcgAGCGugaGGAUGACg -3'
miRNA:   3'- -GGCGC----------UUGCCa-UCGCuuaUCUGCUGg -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.