miRNA display CGI


Results 1 - 20 of 72 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
12846 3' -52.9 NC_003387.1 + 727 0.68 0.739766
Target:  5'- gUGUcgACGGCcuggccgUCGGugCGCGCGAcguguggcGCGAUg -3'
miRNA:   3'- -ACA--UGCCG-------AGUCugGUGUGCU--------UGCUG- -5'
12846 3' -52.9 NC_003387.1 + 1072 0.67 0.780452
Target:  5'- cGUuaGCGGCacuauugccagugUCAGGgccucgacggcggUCACAUGAGCGACg -3'
miRNA:   3'- aCA--UGCCG-------------AGUCU-------------GGUGUGCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 1887 0.68 0.697365
Target:  5'- --cAUGGCgaUCAGcCCGCGCuGAAUGACg -3'
miRNA:   3'- acaUGCCG--AGUCuGGUGUG-CUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 1956 0.69 0.652843
Target:  5'- gGUugGGgCUgGGACCGCcGCGAccCGACc -3'
miRNA:   3'- aCAugCC-GAgUCUGGUG-UGCUu-GCUG- -5'
12846 3' -52.9 NC_003387.1 + 2726 0.7 0.607998
Target:  5'- --gGCGGCgggCAGGCCACGCagcagccgguGAACGuGCg -3'
miRNA:   3'- acaUGCCGa--GUCUGGUGUG----------CUUGC-UG- -5'
12846 3' -52.9 NC_003387.1 + 3724 0.72 0.509201
Target:  5'- --aGCGGCcaCAG-CCACGCGAuCGACg -3'
miRNA:   3'- acaUGCCGa-GUCuGGUGUGCUuGCUG- -5'
12846 3' -52.9 NC_003387.1 + 4076 0.67 0.751447
Target:  5'- cGUGCGGgUUcuGCCGCAUGcucGCGACc -3'
miRNA:   3'- aCAUGCCgAGucUGGUGUGCu--UGCUG- -5'
12846 3' -52.9 NC_003387.1 + 5207 0.66 0.839865
Target:  5'- cUGUgGCGcCUCGGguACCGCACGAugcugcuCGACa -3'
miRNA:   3'- -ACA-UGCcGAGUC--UGGUGUGCUu------GCUG- -5'
12846 3' -52.9 NC_003387.1 + 5521 0.68 0.708361
Target:  5'- --aGCGGCUC--GCC-CGCGAGCGGg -3'
miRNA:   3'- acaUGCCGAGucUGGuGUGCUUGCUg -5'
12846 3' -52.9 NC_003387.1 + 5803 0.67 0.781466
Target:  5'- gGUGCccGGCUCAagcgugcGGCCguGCACG-ACGACc -3'
miRNA:   3'- aCAUG--CCGAGU-------CUGG--UGUGCuUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 7332 0.66 0.802377
Target:  5'- ---uCGGCUCGGGCgGC-CGGGCG-Ca -3'
miRNA:   3'- acauGCCGAGUCUGgUGuGCUUGCuG- -5'
12846 3' -52.9 NC_003387.1 + 8095 0.7 0.601285
Target:  5'- --cGCGGCcaGGGCCACACGcucgcgccacggcccGACGGCg -3'
miRNA:   3'- acaUGCCGagUCUGGUGUGC---------------UUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 8197 0.67 0.772281
Target:  5'- -cUGCGGCgccgggCGGcCCgGCACGAACaGACg -3'
miRNA:   3'- acAUGCCGa-----GUCuGG-UGUGCUUG-CUG- -5'
12846 3' -52.9 NC_003387.1 + 8363 0.68 0.708361
Target:  5'- cUGUuCGGCaugCAGGCCGCGguguucUGGACGAUc -3'
miRNA:   3'- -ACAuGCCGa--GUCUGGUGU------GCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 8401 0.68 0.74403
Target:  5'- cGUGCGGUgucggggccucgcCGGugCGCGCGAgguaaucgagagacACGGCg -3'
miRNA:   3'- aCAUGCCGa------------GUCugGUGUGCU--------------UGCUG- -5'
12846 3' -52.9 NC_003387.1 + 9749 0.67 0.761933
Target:  5'- gGU-CGGC-CAGGCuCACGCGcaugccggGGCGGCa -3'
miRNA:   3'- aCAuGCCGaGUCUG-GUGUGC--------UUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 10012 0.66 0.821534
Target:  5'- --cGCGGC-CGGGCgACgACG-ACGACg -3'
miRNA:   3'- acaUGCCGaGUCUGgUG-UGCuUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 10424 0.67 0.782479
Target:  5'- aGUACGGCUCGcGGCUgucgGCGgGcauCGACa -3'
miRNA:   3'- aCAUGCCGAGU-CUGG----UGUgCuu-GCUG- -5'
12846 3' -52.9 NC_003387.1 + 10651 0.69 0.652843
Target:  5'- gGUACGGCguUCGG-CCucgACGCGGcuGCGACc -3'
miRNA:   3'- aCAUGCCG--AGUCuGG---UGUGCU--UGCUG- -5'
12846 3' -52.9 NC_003387.1 + 10812 0.66 0.821534
Target:  5'- gGUGCagGGCUCGGGCaAgGCG-AUGACg -3'
miRNA:   3'- aCAUG--CCGAGUCUGgUgUGCuUGCUG- -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.