miRNA display CGI


Results 21 - 39 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 + 27519 0.69 0.636634
Target:  5'- uGGGCG-CGUCgagGCguuccUCGCGgGGUUCGGc -3'
miRNA:   3'- -CCUGCuGUAGa--CG-----AGCGUgUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 28871 0.68 0.702075
Target:  5'- -aACGGCAUCUaaGCggCGCGCAGCaUCa- -3'
miRNA:   3'- ccUGCUGUAGA--CGa-GCGUGUCG-AGcc -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 + 31431 0.67 0.744488
Target:  5'- cGGGCGACGUgcGC-CGCuGCGGCgcgcCGGg -3'
miRNA:   3'- -CCUGCUGUAgaCGaGCG-UGUCGa---GCC- -5'
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 + 33135 0.76 0.270277
Target:  5'- cGGCGGCAUCgUGCgcggcgaUCGCACGcuGCUCGGc -3'
miRNA:   3'- cCUGCUGUAG-ACG-------AGCGUGU--CGAGCC- -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 + 34048 0.66 0.81392
Target:  5'- aGGAU--CGUCgcugGCUU-CGCGGCUCGGa -3'
miRNA:   3'- -CCUGcuGUAGa---CGAGcGUGUCGAGCC- -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 + 43244 0.68 0.691274
Target:  5'- gGGccGCGACuuuuUCUGCgucCGCaauggGCAGCUCGa -3'
miRNA:   3'- -CC--UGCUGu---AGACGa--GCG-----UGUCGAGCc -5'
24820 3' -54.2 NC_005284.1 + 44762 0.67 0.754836
Target:  5'- -cGCGACAUCacgcucgGCUUGCGCAagGCcgCGGu -3'
miRNA:   3'- ccUGCUGUAGa------CGAGCGUGU--CGa-GCC- -5'
24820 3' -54.2 NC_005284.1 + 45126 0.69 0.602623
Target:  5'- -cGCG-CAUC-GCUCGCAUgcccgcgAGCUCGGc -3'
miRNA:   3'- ccUGCuGUAGaCGAGCGUG-------UCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 45151 0.66 0.794872
Target:  5'- aGGCGugGUCga--CGCACGGCgacgUCGGg -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 + 45848 0.67 0.754836
Target:  5'- -uGCGACGcgUUGUUUGCgauccgcugauACAGCUCGGc -3'
miRNA:   3'- ccUGCUGUa-GACGAGCG-----------UGUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 46512 1.12 0.000856
Target:  5'- cGGACGACAUCUGCUCGCACAGCUCGGc -3'
miRNA:   3'- -CCUGCUGUAGACGAGCGUGUCGAGCC- -5'
24820 3' -54.2 NC_005284.1 + 46897 0.67 0.744488
Target:  5'- cGGucgcCGACGUCgGCUCGCGCA-CUgCGa -3'
miRNA:   3'- -CCu---GCUGUAGaCGAGCGUGUcGA-GCc -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 + 50859 0.7 0.560206
Target:  5'- cGGACGaaggcauacguGCAUCgcaauagGCauUCGgGCGGCUCGGc -3'
miRNA:   3'- -CCUGC-----------UGUAGa------CG--AGCgUGUCGAGCC- -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.