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
30602 3' -58.2 NC_006549.1 + 40960 0.66 0.831356
Target:  5'- cGCaAGGCUCCC-CUGGGCUCACGgGCc -3'
miRNA:   3'- -CGcUUUGGGGGcGGCUUGGGUGCgUG- -5'
30602 3' -58.2 NC_006549.1 + 11131 0.66 0.814567
Target:  5'- cCGAAAgCCCCGUgGcggaacccaAACCCACcaggGCGCg -3'
miRNA:   3'- cGCUUUgGGGGCGgC---------UUGGGUG----CGUG- -5'
30602 3' -58.2 NC_006549.1 + 117026 0.66 0.805928
Target:  5'- gGUGgcGCCCCCGUCaucucuGCCaaaaguggaACGCACa -3'
miRNA:   3'- -CGCuuUGGGGGCGGcu----UGGg--------UGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 16504 0.66 0.800671
Target:  5'- cGCaGGAACCUaucccauucauacggCUGCUGucgccuCCCGCGCACa -3'
miRNA:   3'- -CG-CUUUGGG---------------GGCGGCuu----GGGUGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 69620 0.67 0.7882
Target:  5'- aUGAGACgUauGCUGGACCC-CGCGCg -3'
miRNA:   3'- cGCUUUGgGggCGGCUUGGGuGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 96587 0.67 0.769927
Target:  5'- uCGAGugCUCCGCgGAucgcucgcuaACCCuuGCGCu -3'
miRNA:   3'- cGCUUugGGGGCGgCU----------UGGGugCGUG- -5'
30602 3' -58.2 NC_006549.1 + 20439 0.67 0.769927
Target:  5'- aGCGAcucugacgaacAACCCUCGuUCGAAgcucaaaaauuuCCCGCGUGCg -3'
miRNA:   3'- -CGCU-----------UUGGGGGC-GGCUU------------GGGUGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 51003 0.67 0.75023
Target:  5'- cCGggGCCCCUuaggGCCGAucggcccuaagggGCCCAUGgGg -3'
miRNA:   3'- cGCuuUGGGGG----CGGCU-------------UGGGUGCgUg -5'
30602 3' -58.2 NC_006549.1 + 6585 0.68 0.722315
Target:  5'- cGCaGGACCaCCCGCCGAACCgAUa--- -3'
miRNA:   3'- -CGcUUUGG-GGGCGGCUUGGgUGcgug -5'
30602 3' -58.2 NC_006549.1 + 132551 0.68 0.722315
Target:  5'- uCGuucGCCCgCGUCGAAuCCCACGC-Cg -3'
miRNA:   3'- cGCuu-UGGGgGCGGCUU-GGGUGCGuG- -5'
30602 3' -58.2 NC_006549.1 + 76313 0.68 0.712532
Target:  5'- cGUGAAACgaCCCGUCaaAACCCAUGUGCc -3'
miRNA:   3'- -CGCUUUGg-GGGCGGc-UUGGGUGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 46257 0.68 0.71155
Target:  5'- uGCGAAAUacaaauuUCCCGCCGAcACCgAcauauCGCGCa -3'
miRNA:   3'- -CGCUUUG-------GGGGCGGCU-UGGgU-----GCGUG- -5'
30602 3' -58.2 NC_006549.1 + 10210 0.68 0.68282
Target:  5'- -gGAAACCgCCGCgaGAGCUCAgaccCGCGCg -3'
miRNA:   3'- cgCUUUGGgGGCGg-CUUGGGU----GCGUG- -5'
30602 3' -58.2 NC_006549.1 + 88715 0.69 0.656765
Target:  5'- cGCGAAGCCUucuuuuggccugaaaUCGCCGuggcgaaaacACUCAUGCACg -3'
miRNA:   3'- -CGCUUUGGG---------------GGCGGCu---------UGGGUGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 125231 0.69 0.652742
Target:  5'- uGCGGAGacugCCCCGUuaCG-AUCCAUGCACa -3'
miRNA:   3'- -CGCUUUg---GGGGCG--GCuUGGGUGCGUG- -5'
30602 3' -58.2 NC_006549.1 + 50918 0.69 0.632596
Target:  5'- ---uGACCCCCGUCuGGCCCAgGCGu -3'
miRNA:   3'- cgcuUUGGGGGCGGcUUGGGUgCGUg -5'
30602 3' -58.2 NC_006549.1 + 10554 0.69 0.632596
Target:  5'- aGCGGAAgCCCgCGCCGAACaaaACGaACa -3'
miRNA:   3'- -CGCUUUgGGG-GCGGCUUGgg-UGCgUG- -5'
30602 3' -58.2 NC_006549.1 + 50456 0.69 0.621512
Target:  5'- aUGGGACCcacuggcCCCGCCGGACCgGCGgGg -3'
miRNA:   3'- cGCUUUGG-------GGGCGGCUUGGgUGCgUg -5'
30602 3' -58.2 NC_006549.1 + 40523 0.7 0.602394
Target:  5'- aUGGGACCCCCugGCCccguaGGACCCACGgGu -3'
miRNA:   3'- cGCUUUGGGGG--CGG-----CUUGGGUGCgUg -5'
30602 3' -58.2 NC_006549.1 + 7137 0.7 0.581355
Target:  5'- aGCGGAuacggucuuguuuGgUUCCGCCGGGCCCAUGgGCc -3'
miRNA:   3'- -CGCUU-------------UgGGGGCGGCUUGGGUGCgUG- -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.