miRNA display CGI


Results 1 - 20 of 39 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
24820 3' -54.2 NC_005284.1 + 32981 0.66 0.794872
Target:  5'- aGGGCGGCGgucaCUcGCUC-CGCAGCgggCGa -3'
miRNA:   3'- -CCUGCUGUa---GA-CGAGcGUGUCGa--GCc -5'
24820 3' -54.2 NC_005284.1 + 31431 0.67 0.744488
Target:  5'- cGGGCGACGUgcGC-CGCuGCGGCgcgcCGGg -3'
miRNA:   3'- -CCUGCUGUAgaCGaGCG-UGUCGa---GCC- -5'
24820 3' -54.2 NC_005284.1 + 13377 0.67 0.754836
Target:  5'- uGGGCGGCgAUCUGUcUGCgGCGGUUCa- -3'
miRNA:   3'- -CCUGCUG-UAGACGaGCG-UGUCGAGcc -5'
24820 3' -54.2 NC_005284.1 + 48960 0.66 0.765061
Target:  5'- cGGACuGCAUCgacgaagcggUGCU-GCGCGGCUggaCGGg -3'
miRNA:   3'- -CCUGcUGUAG----------ACGAgCGUGUCGA---GCC- -5'
24820 3' -54.2 NC_005284.1 + 33968 0.66 0.765061
Target:  5'- cGGcCGGCG-CUGCUgCGgGCuGCUCGa -3'
miRNA:   3'- -CCuGCUGUaGACGA-GCgUGuCGAGCc -5'
24820 3' -54.2 NC_005284.1 + 38744 0.66 0.775149
Target:  5'- cGGACGGCAUgaGCUCGauu-GCgUCGa -3'
miRNA:   3'- -CCUGCUGUAgaCGAGCguguCG-AGCc -5'
24820 3' -54.2 NC_005284.1 + 45459 0.66 0.775149
Target:  5'- cGGGCGACcagUUGCUCGCggcaaugacaACGGuCUCa- -3'
miRNA:   3'- -CCUGCUGua-GACGAGCG----------UGUC-GAGcc -5'
24820 3' -54.2 NC_005284.1 + 9415 0.66 0.78509
Target:  5'- cGACGGCAUCgugaaacucgGCgugUCGCucGCGGC-CGGg -3'
miRNA:   3'- cCUGCUGUAGa---------CG---AGCG--UGUCGaGCC- -5'
24820 3' -54.2 NC_005284.1 + 13101 0.66 0.78509
Target:  5'- cGGACGAUAUCgGaaa--GCGGUUCGGg -3'
miRNA:   3'- -CCUGCUGUAGaCgagcgUGUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 17721 0.67 0.723462
Target:  5'- cGGCGuucggcugcACGUCgcagGCgcaggCGCAcCGGCUCGGg -3'
miRNA:   3'- cCUGC---------UGUAGa---CGa----GCGU-GUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 9910 0.67 0.712808
Target:  5'- cGAa-GCGUCgcucgcGCUCGCGCAGCagCGGc -3'
miRNA:   3'- cCUgcUGUAGa-----CGAGCGUGUCGa-GCC- -5'
24820 3' -54.2 NC_005284.1 + 16906 0.68 0.691274
Target:  5'- aGACGACGUC-GCUCuaugaGCGCucGCaUCGGa -3'
miRNA:   3'- cCUGCUGUAGaCGAG-----CGUGu-CG-AGCC- -5'
24820 3' -54.2 NC_005284.1 + 9031 0.71 0.476357
Target:  5'- gGGugucuCGGCAgauaCUGCUCGUauggggcucguGCAGCUUGGa -3'
miRNA:   3'- -CCu----GCUGUa---GACGAGCG-----------UGUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 30861 0.71 0.495758
Target:  5'- aGGaACGGCAcaUCUGCggcagcgcacuggUCGCGCAGCgaccgagcccagUCGGg -3'
miRNA:   3'- -CC-UGCUGU--AGACG-------------AGCGUGUCG------------AGCC- -5'
24820 3' -54.2 NC_005284.1 + 8237 0.71 0.528145
Target:  5'- --cUGAUGUC-GCUCGCgcuGCGGCUCGGc -3'
miRNA:   3'- ccuGCUGUAGaCGAGCG---UGUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 50859 0.7 0.560206
Target:  5'- cGGACGaaggcauacguGCAUCgcaauagGCauUCGgGCGGCUCGGc -3'
miRNA:   3'- -CCUGC-----------UGUAGa------CG--AGCgUGUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 16130 0.7 0.571017
Target:  5'- uGGCGACGUUcgGuUUCGCGCAGCcgUGGg -3'
miRNA:   3'- cCUGCUGUAGa-C-GAGCGUGUCGa-GCC- -5'
24820 3' -54.2 NC_005284.1 + 27519 0.69 0.636634
Target:  5'- uGGGCG-CGUCgagGCguuccUCGCGgGGUUCGGc -3'
miRNA:   3'- -CCUGCuGUAGa--CG-----AGCGUgUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 21151 0.68 0.680416
Target:  5'- -cGCGugAUgaaUGCcgCGCGCGGCUCGa -3'
miRNA:   3'- ccUGCugUAg--ACGa-GCGUGUCGAGCc -5'
24820 3' -54.2 NC_005284.1 + 43244 0.68 0.691274
Target:  5'- gGGccGCGACuuuuUCUGCgucCGCaauggGCAGCUCGa -3'
miRNA:   3'- -CC--UGCUGu---AGACGa--GCG-----UGUCGAGCc -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.