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
27933 3' -48.6 NC_005886.2 + 36027 0.66 0.960819
Target:  5'- -cGaCGAacgAUCGGCGCuauacgauuauguacGGAUGGCGUGUc -3'
miRNA:   3'- uaC-GCU---UAGCUGCGu--------------UCUACUGUACG- -5'
27933 3' -48.6 NC_005886.2 + 32989 0.66 0.956177
Target:  5'- -cGCGcGUUG-CGCGGGAaGACcUGCg -3'
miRNA:   3'- uaCGCuUAGCuGCGUUCUaCUGuACG- -5'
27933 3' -48.6 NC_005886.2 + 21202 0.66 0.951644
Target:  5'- gGUGCGuGUCGuCGaCAaagacaaugaAGAUGuCGUGCa -3'
miRNA:   3'- -UACGCuUAGCuGC-GU----------UCUACuGUACG- -5'
27933 3' -48.6 NC_005886.2 + 23347 0.66 0.946807
Target:  5'- cAUGCGAAUCuuuUGCAGGuccGGgAUGCg -3'
miRNA:   3'- -UACGCUUAGcu-GCGUUCua-CUgUACG- -5'
27933 3' -48.6 NC_005886.2 + 20834 0.67 0.936204
Target:  5'- uUGCGuucgaAAUgGGCGCGguuGAUGGCGUGg -3'
miRNA:   3'- uACGC-----UUAgCUGCGUu--CUACUGUACg -5'
27933 3' -48.6 NC_005886.2 + 24076 0.68 0.904192
Target:  5'- -cGCGAcgAUCcGCGCaAAGAUGACGaGUg -3'
miRNA:   3'- uaCGCU--UAGcUGCG-UUCUACUGUaCG- -5'
27933 3' -48.6 NC_005886.2 + 38566 0.68 0.904192
Target:  5'- -aGCGAGcgCGACGgaCGGGAuaccgUGACGUGUg -3'
miRNA:   3'- uaCGCUUa-GCUGC--GUUCU-----ACUGUACG- -5'
27933 3' -48.6 NC_005886.2 + 44561 0.68 0.896853
Target:  5'- -aGCGAA-CGACGCAaucauuccGGGUGGCGg-- -3'
miRNA:   3'- uaCGCUUaGCUGCGU--------UCUACUGUacg -5'
27933 3' -48.6 NC_005886.2 + 32752 0.68 0.889209
Target:  5'- uUGCGAAU-GAUGCGGGAcagcgUGACAUa- -3'
miRNA:   3'- uACGCUUAgCUGCGUUCU-----ACUGUAcg -5'
27933 3' -48.6 NC_005886.2 + 15100 0.7 0.797691
Target:  5'- --uCGAcgCGACGUAGGcuguUGGCGUGCc -3'
miRNA:   3'- uacGCUuaGCUGCGUUCu---ACUGUACG- -5'
27933 3' -48.6 NC_005886.2 + 25912 0.7 0.796656
Target:  5'- -cGCGGGcuugaauUCGACGCGGGcUGguuucGCAUGCa -3'
miRNA:   3'- uaCGCUU-------AGCUGCGUUCuAC-----UGUACG- -5'
27933 3' -48.6 NC_005886.2 + 39851 0.7 0.787257
Target:  5'- -cGCGggUCGaagucGCGCAaagcGGGUGACGaaauuccgcUGCg -3'
miRNA:   3'- uaCGCuuAGC-----UGCGU----UCUACUGU---------ACG- -5'
27933 3' -48.6 NC_005886.2 + 7213 0.7 0.776637
Target:  5'- aGUGCGAccauugauAUCGAUGCugAAGAcGaACAUGCa -3'
miRNA:   3'- -UACGCU--------UAGCUGCG--UUCUaC-UGUACG- -5'
27933 3' -48.6 NC_005886.2 + 38280 0.72 0.675051
Target:  5'- cGUGCGAAcCGACGUgcGcgGGCGUGa -3'
miRNA:   3'- -UACGCUUaGCUGCGuuCuaCUGUACg -5'
27933 3' -48.6 NC_005886.2 + 25801 0.73 0.639859
Target:  5'- -cGCGuGUCGGCGCGuuuGGUGaaucugguGCAUGCg -3'
miRNA:   3'- uaCGCuUAGCUGCGUu--CUAC--------UGUACG- -5'
27933 3' -48.6 NC_005886.2 + 6514 0.73 0.628096
Target:  5'- aAUGCaauacgCGAUGCAAGAcGGCAUGCc -3'
miRNA:   3'- -UACGcuua--GCUGCGUUCUaCUGUACG- -5'
27933 3' -48.6 NC_005886.2 + 44532 0.74 0.592876
Target:  5'- -cGUGAucaacGUUGACGUGcGGAUGACGUGCu -3'
miRNA:   3'- uaCGCU-----UAGCUGCGU-UCUACUGUACG- -5'
27933 3' -48.6 NC_005886.2 + 43479 0.76 0.479356
Target:  5'- -gGCGAcggaAUCGACGCG-GAUGGCAaGCc -3'
miRNA:   3'- uaCGCU----UAGCUGCGUuCUACUGUaCG- -5'
27933 3' -48.6 NC_005886.2 + 21008 1.12 0.00242
Target:  5'- aAUGCGAAUCGACGCAAGAUGACAUGCg -3'
miRNA:   3'- -UACGCUUAGCUGCGUUCUACUGUACG- -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.