miRNA display CGI


Results 1 - 13 of 13 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
31864 3' -59.5 NC_006938.1 + 36970 0.66 0.517614
Target:  5'- aGGGCUGUucgGaGCGCGGAcGGCUCUgaucCUCa -3'
miRNA:   3'- gUUCGGUA---C-CGCGCCU-CCGAGGa---GAG- -5'
31864 3' -59.5 NC_006938.1 + 24573 0.66 0.487189
Target:  5'- gAGGCCAUGcGCGCucgcGGCUUCUcCUCc -3'
miRNA:   3'- gUUCGGUAC-CGCGccu-CCGAGGA-GAG- -5'
31864 3' -59.5 NC_006938.1 + 15099 0.67 0.457635
Target:  5'- uCAGGCCAaGGCGCacacuGAGGUugucaaUCCUCg- -3'
miRNA:   3'- -GUUCGGUaCCGCGc----CUCCG------AGGAGag -5'
31864 3' -59.5 NC_006938.1 + 29256 0.67 0.447998
Target:  5'- aCAGGCCAgcggUGGCauaugacucgGCcGAGGCcCCUCUUg -3'
miRNA:   3'- -GUUCGGU----ACCG----------CGcCUCCGaGGAGAG- -5'
31864 3' -59.5 NC_006938.1 + 37935 0.67 0.429068
Target:  5'- -uGGCCAgGGCgGUGGAGGCgUCggCUCu -3'
miRNA:   3'- guUCGGUaCCG-CGCCUCCG-AGgaGAG- -5'
31864 3' -59.5 NC_006938.1 + 40058 0.67 0.410618
Target:  5'- gAAGCCGUgGGCGaCGGAGGUgaggaaguugCCguucgCUCc -3'
miRNA:   3'- gUUCGGUA-CCGC-GCCUCCGa---------GGa----GAG- -5'
31864 3' -59.5 NC_006938.1 + 1995 0.68 0.375237
Target:  5'- ---aCUAUGGCGCgcugaucguGGAGG-UCCUCUCa -3'
miRNA:   3'- guucGGUACCGCG---------CCUCCgAGGAGAG- -5'
31864 3' -59.5 NC_006938.1 + 50051 0.68 0.366719
Target:  5'- gAGGCCuuugugcccGGCGCGGGuGGCUCCa--- -3'
miRNA:   3'- gUUCGGua-------CCGCGCCU-CCGAGGagag -5'
31864 3' -59.5 NC_006938.1 + 44255 0.7 0.288321
Target:  5'- cCAGGCCcucuucaagggagGUGGCG-GuGGGCUCCUCUa -3'
miRNA:   3'- -GUUCGG-------------UACCGCgCcUCCGAGGAGAg -5'
31864 3' -59.5 NC_006938.1 + 29645 0.7 0.282012
Target:  5'- gAAGCCAUGGUGgaGGAGGaUCUggCUCg -3'
miRNA:   3'- gUUCGGUACCGCg-CCUCCgAGGa-GAG- -5'
31864 3' -59.5 NC_006938.1 + 9186 0.71 0.242736
Target:  5'- --cGCCGUGGCGCGcagauGGGCgUCCUC-Cg -3'
miRNA:   3'- guuCGGUACCGCGCc----UCCG-AGGAGaG- -5'
31864 3' -59.5 NC_006938.1 + 4165 0.73 0.173203
Target:  5'- -uGGCCAUGGUccggGCGGAcGGCUCCgacaUCg -3'
miRNA:   3'- guUCGGUACCG----CGCCU-CCGAGGag--AG- -5'
31864 3' -59.5 NC_006938.1 + 38204 1.09 0.000367
Target:  5'- cCAAGCCAUGGCGCGGAGGCUCCUCUCa -3'
miRNA:   3'- -GUUCGGUACCGCGCCUCCGAGGAGAG- -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.