miRNA display CGI


Results 1 - 20 of 31 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
21271 3' -58.7 NC_004778.3 + 43836 0.66 0.747721
Target:  5'- cGCGCuaauuGCGcGGCCGuccgacgcggcaacAGGUGC-CGGCu -3'
miRNA:   3'- uCGCGu----CGCaCCGGC--------------UUCACGaGCUG- -5'
21271 3' -58.7 NC_004778.3 + 71510 0.67 0.670856
Target:  5'- cGGCGgaGGCGuUGGCCaGGGUG-UCGGCg -3'
miRNA:   3'- -UCGCg-UCGC-ACCGGcUUCACgAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 61027 0.67 0.677982
Target:  5'- cGUGCAGCGUuggcGGUCGGuagccaaaucaaacAcGUGCUCGAa -3'
miRNA:   3'- uCGCGUCGCA----CCGGCU--------------U-CACGAGCUg -5'
21271 3' -58.7 NC_004778.3 + 29469 0.67 0.691166
Target:  5'- uGGCGaCAGCGUGGC----GUGCacaaauUCGACg -3'
miRNA:   3'- -UCGC-GUCGCACCGgcuuCACG------AGCUG- -5'
21271 3' -58.7 NC_004778.3 + 5285 0.67 0.691166
Target:  5'- uAGCGCA-CGUcGCgGAcGUGUUCGACc -3'
miRNA:   3'- -UCGCGUcGCAcCGgCUuCACGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 17470 0.66 0.731122
Target:  5'- cGCGCAGCcUGGCCauuGUGCcuuuaGACc -3'
miRNA:   3'- uCGCGUCGcACCGGcuuCACGag---CUG- -5'
21271 3' -58.7 NC_004778.3 + 89883 0.66 0.731122
Target:  5'- uGUGCAGCGUGGUgGGcgcaAGcgGCUUGcGCg -3'
miRNA:   3'- uCGCGUCGCACCGgCU----UCa-CGAGC-UG- -5'
21271 3' -58.7 NC_004778.3 + 27485 0.66 0.740919
Target:  5'- cGUGCcGUG-GGCCGAccacauggccGUGUUCGACg -3'
miRNA:   3'- uCGCGuCGCaCCGGCUu---------CACGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 33447 0.66 0.744812
Target:  5'- cGGCGCgaaaAGCGcGGCCGuccgcacggcggcGUGCUCGcCg -3'
miRNA:   3'- -UCGCG----UCGCaCCGGCuu-----------CACGAGCuG- -5'
21271 3' -58.7 NC_004778.3 + 92861 0.67 0.670856
Target:  5'- cGUGCAcGCuucGGCCGAGaacgGCUCGGCg -3'
miRNA:   3'- uCGCGU-CGca-CCGGCUUca--CGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 34310 0.67 0.669836
Target:  5'- aAGUGcCGGCGcGuGCUGGAacuggugcagggcGUGCUCGACa -3'
miRNA:   3'- -UCGC-GUCGCaC-CGGCUU-------------CACGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 2393 0.67 0.650418
Target:  5'- cGCGCGGU--GGCCGAcGUGCccgcgccCGACg -3'
miRNA:   3'- uCGCGUCGcaCCGGCUuCACGa------GCUG- -5'
21271 3' -58.7 NC_004778.3 + 29333 0.76 0.218677
Target:  5'- uGGCGCGGCGcGcGCUGggGUGCgccaagCGGCu -3'
miRNA:   3'- -UCGCGUCGCaC-CGGCuuCACGa-----GCUG- -5'
21271 3' -58.7 NC_004778.3 + 33760 0.75 0.246978
Target:  5'- uGGCGCGGCacUGGCauCGAguGGUGCUCGAUg -3'
miRNA:   3'- -UCGCGUCGc-ACCG--GCU--UCACGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 81749 0.72 0.419866
Target:  5'- cGGCGCGGCGggUGGCgGAccgacugcgccgguaGGUGCgCGGCc -3'
miRNA:   3'- -UCGCGUCGC--ACCGgCU---------------UCACGaGCUG- -5'
21271 3' -58.7 NC_004778.3 + 34397 0.7 0.480267
Target:  5'- -uUGCAGCucGUGGCCGGGcUGCUcCGGCa -3'
miRNA:   3'- ucGCGUCG--CACCGGCUUcACGA-GCUG- -5'
21271 3' -58.7 NC_004778.3 + 64161 0.7 0.480267
Target:  5'- cGCGCc-CGUGGCCGccGaGCUUGACg -3'
miRNA:   3'- uCGCGucGCACCGGCuuCaCGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 118781 0.69 0.565687
Target:  5'- gGGCGCGGCGcGGCCGGcgcgcacaauuacgAG-GCccagCGGCg -3'
miRNA:   3'- -UCGCGUCGCaCCGGCU--------------UCaCGa---GCUG- -5'
21271 3' -58.7 NC_004778.3 + 57121 0.69 0.565687
Target:  5'- cGGCGguGCuG-GGCCccgacggaacgggaGAcGUGCUCGACa -3'
miRNA:   3'- -UCGCguCG-CaCCGG--------------CUuCACGAGCUG- -5'
21271 3' -58.7 NC_004778.3 + 65757 0.68 0.599211
Target:  5'- uGGCGCAGCGa-GCCGGgcGGUGa-CGGCg -3'
miRNA:   3'- -UCGCGUCGCacCGGCU--UCACgaGCUG- -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.