miRNA display CGI


Results 1 - 18 of 18 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
22669 3' -55.7 NC_005091.1 + 52287 0.66 0.718124
Target:  5'- uAGuGUGCguuGCGGAuCGAUUcgacaGCGGCCAGu -3'
miRNA:   3'- -UCuCACG---CGCUU-GCUAG-----CGCCGGUUc -5'
22669 3' -55.7 NC_005091.1 + 410 0.66 0.707473
Target:  5'- gAGAGcGCGCGGuucucacgcacGCGAcggCGCaGGUCGAGc -3'
miRNA:   3'- -UCUCaCGCGCU-----------UGCUa--GCG-CCGGUUC- -5'
22669 3' -55.7 NC_005091.1 + 53059 0.66 0.707473
Target:  5'- -uGGUGCGgGGuucGCuGAUCGCGGCgAGc -3'
miRNA:   3'- ucUCACGCgCU---UG-CUAGCGCCGgUUc -5'
22669 3' -55.7 NC_005091.1 + 57804 0.66 0.707473
Target:  5'- gAGAGcGCGCGGuucucacgcacGCGAcggCGCaGGUCGAGc -3'
miRNA:   3'- -UCUCaCGCGCU-----------UGCUa--GCG-CCGGUUC- -5'
22669 3' -55.7 NC_005091.1 + 29997 0.66 0.696748
Target:  5'- cGuGUGgaaGCGAGCGGUCaGCGGCg--- -3'
miRNA:   3'- uCuCACg--CGCUUGCUAG-CGCCGguuc -5'
22669 3' -55.7 NC_005091.1 + 2893 0.66 0.685962
Target:  5'- -uGGUGUGCGAauAUGuccUUGCGGCCGu- -3'
miRNA:   3'- ucUCACGCGCU--UGCu--AGCGCCGGUuc -5'
22669 3' -55.7 NC_005091.1 + 26127 0.66 0.685962
Target:  5'- --cGUGCGCGGcgaGCuGAUCGCGcucGCCAc- -3'
miRNA:   3'- ucuCACGCGCU---UG-CUAGCGC---CGGUuc -5'
22669 3' -55.7 NC_005091.1 + 6024 0.66 0.675125
Target:  5'- cGAGggcgGCGCGGACGuUCG-GGCguuCGAGg -3'
miRNA:   3'- uCUCa---CGCGCUUGCuAGCgCCG---GUUC- -5'
22669 3' -55.7 NC_005091.1 + 34850 0.66 0.675125
Target:  5'- cGGAu--CGCcGACGcgCGCGGCCGGGa -3'
miRNA:   3'- -UCUcacGCGcUUGCuaGCGCCGGUUC- -5'
22669 3' -55.7 NC_005091.1 + 31024 0.68 0.609618
Target:  5'- -cGGUGaGCGccgGAUCGCGGCCGAa -3'
miRNA:   3'- ucUCACgCGCuugCUAGCGCCGGUUc -5'
22669 3' -55.7 NC_005091.1 + 29502 0.68 0.555455
Target:  5'- aAGGGcgGCGUcu-CGGUCGUGGUCAAGc -3'
miRNA:   3'- -UCUCa-CGCGcuuGCUAGCGCCGGUUC- -5'
22669 3' -55.7 NC_005091.1 + 34316 0.69 0.543707
Target:  5'- cGGGGUGCGCGAccugaauccaguaGCcc-UGCGGCCGGc -3'
miRNA:   3'- -UCUCACGCGCU-------------UGcuaGCGCCGGUUc -5'
22669 3' -55.7 NC_005091.1 + 827 0.69 0.534156
Target:  5'- uGGGUGUacgGCG-GCGAUCcuGCGGCCAu- -3'
miRNA:   3'- uCUCACG---CGCuUGCUAG--CGCCGGUuc -5'
22669 3' -55.7 NC_005091.1 + 18143 0.7 0.472234
Target:  5'- cGGucgGCGCGAGCu-UCGCGGCCcGGc -3'
miRNA:   3'- -UCucaCGCGCUUGcuAGCGCCGGuUC- -5'
22669 3' -55.7 NC_005091.1 + 43225 0.71 0.423526
Target:  5'- cGAGUGgcaUGCGAAaGAaaGCGGCCGAGa -3'
miRNA:   3'- uCUCAC---GCGCUUgCUagCGCCGGUUC- -5'
22669 3' -55.7 NC_005091.1 + 36307 0.71 0.414149
Target:  5'- ---aUGCGCGAGCG-UCGCGGCg--- -3'
miRNA:   3'- ucucACGCGCUUGCuAGCGCCGguuc -5'
22669 3' -55.7 NC_005091.1 + 1191 0.78 0.154401
Target:  5'- aGGAGaUGCGUGu-CGAUCGCGaGCCGGGa -3'
miRNA:   3'- -UCUC-ACGCGCuuGCUAGCGC-CGGUUC- -5'
22669 3' -55.7 NC_005091.1 + 10788 1.09 0.000922
Target:  5'- cAGAGUGCGCGAACGAUCGCGGCCAAGg -3'
miRNA:   3'- -UCUCACGCGCUUGCUAGCGCCGGUUC- -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.