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 + 28435 0.76 0.30502
Target:  5'- --gGCGGCUCauGGugUACACGAuCGACg -3'
miRNA:   3'- acaUGCCGAG--UCugGUGUGCUuGCUG- -5'
12846 3' -52.9 NC_003387.1 + 38280 0.68 0.686304
Target:  5'- -aUAUGGUUCAucCCGCGCG-GCGGCa -3'
miRNA:   3'- acAUGCCGAGUcuGGUGUGCuUGCUG- -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 + 5207 0.66 0.839865
Target:  5'- cUGUgGCGcCUCGGguACCGCACGAugcugcuCGACa -3'
miRNA:   3'- -ACA-UGCcGAGUC--UGGUGUGCUu------GCUG- -5'
12846 3' -52.9 NC_003387.1 + 12287 0.73 0.437247
Target:  5'- --gGCGGCcggaucagCGGGCCgggcaccgGCACGAGCGACa -3'
miRNA:   3'- acaUGCCGa-------GUCUGG--------UGUGCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 20173 0.73 0.447176
Target:  5'- cGU-CGGCUC--GCCAC-CGGACGGCg -3'
miRNA:   3'- aCAuGCCGAGucUGGUGuGCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 19471 0.71 0.552488
Target:  5'- gUGUG-GGCgccgAGGCCAcCGCGGGCGACg -3'
miRNA:   3'- -ACAUgCCGag--UCUGGU-GUGCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 44965 0.7 0.582326
Target:  5'- --cGCGGCUCAGGCCGCGaucgccgcugccgcCGAGgCGGu -3'
miRNA:   3'- acaUGCCGAGUCUGGUGU--------------GCUU-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 + 23938 0.69 0.675189
Target:  5'- cGgcUGGCUC-GACCgggGCACG-GCGACa -3'
miRNA:   3'- aCauGCCGAGuCUGG---UGUGCuUGCUG- -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 + 13710 0.7 0.607998
Target:  5'- --cGCGGCcCAGGCgGCGCaGGGCGAUc -3'
miRNA:   3'- acaUGCCGaGUCUGgUGUG-CUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 28859 0.74 0.380465
Target:  5'- -cUGCGGgUCGGACUgguacCGCGAGCGGCa -3'
miRNA:   3'- acAUGCCgAGUCUGGu----GUGCUUGCUG- -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 + 45349 0.74 0.398841
Target:  5'- cGUGCaGCUCAGGCgACGCGcuCGAg -3'
miRNA:   3'- aCAUGcCGAGUCUGgUGUGCuuGCUg -5'
12846 3' -52.9 NC_003387.1 + 21779 0.7 0.595699
Target:  5'- cUGUuCGcGCUCAaguuGACCGCggcggccagcucgGCGAGCGACg -3'
miRNA:   3'- -ACAuGC-CGAGU----CUGGUG-------------UGCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 29717 0.69 0.674075
Target:  5'- --gGCGGCgccCAGGCCgacgacggcagcuACGCGGGCGAg -3'
miRNA:   3'- acaUGCCGa--GUCUGG-------------UGUGCUUGCUg -5'
12846 3' -52.9 NC_003387.1 + 45818 0.68 0.697365
Target:  5'- aUGUcccGCGGCUgAuGGCC-CGCG-ACGACg -3'
miRNA:   3'- -ACA---UGCCGAgU-CUGGuGUGCuUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 20063 0.73 0.408239
Target:  5'- gGUAgGGCUCAGuGgCACAaggUGAACGACg -3'
miRNA:   3'- aCAUgCCGAGUC-UgGUGU---GCUUGCUG- -5'
12846 3' -52.9 NC_003387.1 + 46304 0.72 0.498596
Target:  5'- --gGCGGCgcagCGGGCCGCugGGAagGGCa -3'
miRNA:   3'- acaUGCCGa---GUCUGGUGugCUUg-CUG- -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.