miRNA display CGI


Results 1 - 20 of 40 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
12489 5' -57.5 NC_003324.1 + 18423 0.79 0.10112
Target:  5'- aAGGCGAcgcuggucauggucuGCGCGACCuUGCCGCCGGUcGGg -3'
miRNA:   3'- -UCUGCU---------------CGCGCUGG-ACGGCGGUUA-CU- -5'
12489 5' -57.5 NC_003324.1 + 52977 1.09 0.000621
Target:  5'- gAGACGAGCGCGACCUGCCGCCAAUGAa -3'
miRNA:   3'- -UCUGCUCGCGCUGGACGGCGGUUACU- -5'
12489 5' -57.5 NC_003324.1 + 40529 0.66 0.607446
Target:  5'- cGAuCGAGCGCGGCgaGaaGCCucUGGu -3'
miRNA:   3'- uCU-GCUCGCGCUGgaCggCGGuuACU- -5'
12489 5' -57.5 NC_003324.1 + 5031 0.66 0.607446
Target:  5'- cGACuacGGCGUGAUCUcgaucgacaccGCCGCCAagGAc -3'
miRNA:   3'- uCUGc--UCGCGCUGGA-----------CGGCGGUuaCU- -5'
12489 5' -57.5 NC_003324.1 + 1160 0.66 0.585839
Target:  5'- gGGGCGAGCGgGAa--GCCGCgAAaGAg -3'
miRNA:   3'- -UCUGCUCGCgCUggaCGGCGgUUaCU- -5'
12489 5' -57.5 NC_003324.1 + 52248 0.66 0.575087
Target:  5'- cGGCcAGUuCGuCCUGCCGCCGAaGAc -3'
miRNA:   3'- uCUGcUCGcGCuGGACGGCGGUUaCU- -5'
12489 5' -57.5 NC_003324.1 + 56883 0.67 0.543137
Target:  5'- cGACG-GCGUGACCgaauuccCCGgCAAUGGa -3'
miRNA:   3'- uCUGCuCGCGCUGGac-----GGCgGUUACU- -5'
12489 5' -57.5 NC_003324.1 + 21258 0.67 0.521122
Target:  5'- aGGAUGAGCGgauugccCGACgCUGCCGCUu---- -3'
miRNA:   3'- -UCUGCUCGC-------GCUG-GACGGCGGuuacu -5'
12489 5' -57.5 NC_003324.1 + 14569 0.67 0.511792
Target:  5'- -cAUGGGuCGCGGCCUGCCGgCGc--- -3'
miRNA:   3'- ucUGCUC-GCGCUGGACGGCgGUuacu -5'
12489 5' -57.5 NC_003324.1 + 57160 0.68 0.501509
Target:  5'- cGACuGAGUGCGaagccaaggGCCUGCCGCuCAcaGAc -3'
miRNA:   3'- uCUG-CUCGCGC---------UGGACGGCG-GUuaCU- -5'
12489 5' -57.5 NC_003324.1 + 56549 0.69 0.441903
Target:  5'- cGGGCGAaguugccCGCGACCcaUGCCGCCGc--- -3'
miRNA:   3'- -UCUGCUc------GCGCUGG--ACGGCGGUuacu -5'
12489 5' -57.5 NC_003324.1 + 56508 0.69 0.404467
Target:  5'- aGGAUGAGCGCGGCgCUG-CGCaCAAc-- -3'
miRNA:   3'- -UCUGCUCGCGCUG-GACgGCG-GUUacu -5'
12489 5' -57.5 NC_003324.1 + 42297 0.69 0.395425
Target:  5'- --cUGAGUGCGccGCCUGCCacgugccgggcGCCGGUGAc -3'
miRNA:   3'- ucuGCUCGCGC--UGGACGG-----------CGGUUACU- -5'
12489 5' -57.5 NC_003324.1 + 1736 0.7 0.372537
Target:  5'- uGGACGAGaGCGAuccggucuggguaauCCcgGCCGCCAgaAUGAa -3'
miRNA:   3'- -UCUGCUCgCGCU---------------GGa-CGGCGGU--UACU- -5'
12489 5' -57.5 NC_003324.1 + 23186 0.7 0.369096
Target:  5'- cGGCGAGCGCGGuaccgcUCUGCaucgugCGCCAGaUGAa -3'
miRNA:   3'- uCUGCUCGCGCU------GGACG------GCGGUU-ACU- -5'
12489 5' -57.5 NC_003324.1 + 1535 0.7 0.360591
Target:  5'- cAGugGuGCGCGGCgCUaugGCC-CCGAUGAa -3'
miRNA:   3'- -UCugCuCGCGCUG-GA---CGGcGGUUACU- -5'
12489 5' -57.5 NC_003324.1 + 20581 0.72 0.291023
Target:  5'- uGGCGAGCGgGAUCcggugcuguggcgccGUCGCCAGUGAc -3'
miRNA:   3'- uCUGCUCGCgCUGGa--------------CGGCGGUUACU- -5'
12489 5' -57.5 NC_003324.1 + 30762 0.68 0.471228
Target:  5'- aAGcACGGGCGCGGuCCUG-CGCCGu--- -3'
miRNA:   3'- -UC-UGCUCGCGCU-GGACgGCGGUuacu -5'
12489 5' -57.5 NC_003324.1 + 12424 0.68 0.471228
Target:  5'- uGcCGAGCGCGGCaaUGCCGaCAAUGu -3'
miRNA:   3'- uCuGCUCGCGCUGg-ACGGCgGUUACu -5'
12489 5' -57.5 NC_003324.1 + 43639 0.68 0.471228
Target:  5'- uGACGuuGCGCGGCgUGUgGCUGAUGc -3'
miRNA:   3'- uCUGCu-CGCGCUGgACGgCGGUUACu -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.