miRNA display CGI


Results 1 - 19 of 19 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
12200 3' -55.6 NC_003309.1 + 3315 0.66 0.670264
Target:  5'- uGUCGA-GCGCGGAaaggcgcaGCGCGUCGaucAGCg -3'
miRNA:   3'- -CAGUUcCGCGCUUa-------CGCGCGGCa--UCG- -5'
12200 3' -55.6 NC_003309.1 + 9542 0.66 0.670264
Target:  5'- uUCGcGGauCGAAcUGCGCGCCGcgucgAGCg -3'
miRNA:   3'- cAGUuCCgcGCUU-ACGCGCGGCa----UCG- -5'
12200 3' -55.6 NC_003309.1 + 25867 0.66 0.670264
Target:  5'- cGUCGGGGCGcCGAAca-GCaCCGgcGCg -3'
miRNA:   3'- -CAGUUCCGC-GCUUacgCGcGGCauCG- -5'
12200 3' -55.6 NC_003309.1 + 37321 0.66 0.66366
Target:  5'- cGUCuaccuGcGCGCGAucGUGCGCgacgcccugaaucucGCCGgcGCg -3'
miRNA:   3'- -CAGuu---C-CGCGCU--UACGCG---------------CGGCauCG- -5'
12200 3' -55.6 NC_003309.1 + 41732 0.67 0.63716
Target:  5'- aUCAgAGGCGUGA----GCGCCGaUGGCu -3'
miRNA:   3'- cAGU-UCCGCGCUuacgCGCGGC-AUCG- -5'
12200 3' -55.6 NC_003309.1 + 13637 0.67 0.615051
Target:  5'- aGUCcgcGGGCGCGAAgcgGCGgCGuCCaGUAGa -3'
miRNA:   3'- -CAGu--UCCGCGCUUa--CGC-GC-GG-CAUCg -5'
12200 3' -55.6 NC_003309.1 + 10885 0.67 0.608426
Target:  5'- gGUCGccGCGCGuuccgcucgcucGCGCGCCugcGUGGCa -3'
miRNA:   3'- -CAGUucCGCGCuua---------CGCGCGG---CAUCG- -5'
12200 3' -55.6 NC_003309.1 + 31741 0.67 0.604014
Target:  5'- aUCAu-GCGCGAugaGCGUgagugGCCGUGGCc -3'
miRNA:   3'- cAGUucCGCGCUua-CGCG-----CGGCAUCG- -5'
12200 3' -55.6 NC_003309.1 + 5064 0.67 0.604014
Target:  5'- ---cGGGCGCGGcgGCcgGUGCCGcgacGGCg -3'
miRNA:   3'- caguUCCGCGCUuaCG--CGCGGCa---UCG- -5'
12200 3' -55.6 NC_003309.1 + 34570 0.68 0.571085
Target:  5'- -cCGAGaGCGCGcAGUGCGCcugguacgcgaGCagCGUAGCg -3'
miRNA:   3'- caGUUC-CGCGC-UUACGCG-----------CG--GCAUCG- -5'
12200 3' -55.6 NC_003309.1 + 49883 0.68 0.569994
Target:  5'- cUCAAGuuccaucGCGCGAAUGaGCGCgGUucggAGCa -3'
miRNA:   3'- cAGUUC-------CGCGCUUACgCGCGgCA----UCG- -5'
12200 3' -55.6 NC_003309.1 + 5335 0.68 0.560198
Target:  5'- uUCGAgagcGGCaGCGugcGCGCGCCG-AGCu -3'
miRNA:   3'- cAGUU----CCG-CGCuuaCGCGCGGCaUCG- -5'
12200 3' -55.6 NC_003309.1 + 4631 0.68 0.560198
Target:  5'- --gGAGGCGCGAacuucggcagcgAUGCGauugauugcUGCCuGUGGCg -3'
miRNA:   3'- cagUUCCGCGCU------------UACGC---------GCGG-CAUCG- -5'
12200 3' -55.6 NC_003309.1 + 32961 0.69 0.496351
Target:  5'- --uGAGGCGCGAGaGCGCGaCGacccugAGCu -3'
miRNA:   3'- cagUUCCGCGCUUaCGCGCgGCa-----UCG- -5'
12200 3' -55.6 NC_003309.1 + 32058 0.69 0.475788
Target:  5'- -cCGAGGCGCGcAAUGCaCGCUucgcUGGCg -3'
miRNA:   3'- caGUUCCGCGC-UUACGcGCGGc---AUCG- -5'
12200 3' -55.6 NC_003309.1 + 5164 0.7 0.445765
Target:  5'- uUCGAGGCGagc-UGCGCGUCGccGCg -3'
miRNA:   3'- cAGUUCCGCgcuuACGCGCGGCauCG- -5'
12200 3' -55.6 NC_003309.1 + 7232 0.71 0.380092
Target:  5'- gGUCGAGauaccCGCGuuUGCGCGCCGgcAGUa -3'
miRNA:   3'- -CAGUUCc----GCGCuuACGCGCGGCa-UCG- -5'
12200 3' -55.6 NC_003309.1 + 15439 0.71 0.380092
Target:  5'- cGUCGAGGUagcgcGCGAGUGUccgGCGCCGg--- -3'
miRNA:   3'- -CAGUUCCG-----CGCUUACG---CGCGGCaucg -5'
12200 3' -55.6 NC_003309.1 + 30804 0.73 0.290758
Target:  5'- cGUCu-GGCGCGcAAUGuCGCGCCGcgucuGCa -3'
miRNA:   3'- -CAGuuCCGCGC-UUAC-GCGCGGCau---CG- -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.