miRNA display CGI


Results 1 - 20 of 57 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
23065 3' -62.3 NC_005178.1 + 33963 1.1 0.000111
Target:  5'- cCGAGCAUCGCCGCCAGGCGCGGCAGGa -3'
miRNA:   3'- -GCUCGUAGCGGCGGUCCGCGCCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 23362 0.75 0.063298
Target:  5'- gGGGCGUCGCa-CCAGG-GCGGCAGu -3'
miRNA:   3'- gCUCGUAGCGgcGGUCCgCGCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 5606 0.75 0.065116
Target:  5'- uCGA-CGUaGCCGcCCAGGCGCaGGCAGGc -3'
miRNA:   3'- -GCUcGUAgCGGC-GGUCCGCG-CCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 28666 0.73 0.081582
Target:  5'- uGAGCggCGCCcauGCuUGGGCGUGGUAGGg -3'
miRNA:   3'- gCUCGuaGCGG---CG-GUCCGCGCCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 16160 0.73 0.088729
Target:  5'- uCGAGCAUUuCCGCCAGGU-CGGCcguGGa -3'
miRNA:   3'- -GCUCGUAGcGGCGGUCCGcGCCGu--CC- -5'
23065 3' -62.3 NC_005178.1 + 6850 0.71 0.117077
Target:  5'- aGGGCAUCaCCGaCCAGGaucaGCaGCAGGc -3'
miRNA:   3'- gCUCGUAGcGGC-GGUCCg---CGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 26369 0.71 0.127111
Target:  5'- gCGAGUGaCGCCGCCAuGGCGgacaguugccCGGCGGu -3'
miRNA:   3'- -GCUCGUaGCGGCGGU-CCGC----------GCCGUCc -5'
23065 3' -62.3 NC_005178.1 + 28261 0.71 0.13063
Target:  5'- gGAGCGU-GCCGCCagcagucgccaGGGCGCcGGCcgAGGc -3'
miRNA:   3'- gCUCGUAgCGGCGG-----------UCCGCG-CCG--UCC- -5'
23065 3' -62.3 NC_005178.1 + 29161 0.7 0.145225
Target:  5'- -cAGUAgUCGCCGCCAGGCG-GGauugcucCAGGa -3'
miRNA:   3'- gcUCGU-AGCGGCGGUCCGCgCC-------GUCC- -5'
23065 3' -62.3 NC_005178.1 + 27293 0.7 0.145618
Target:  5'- cCGAGCAgaaGCU-CCAGGCGCaGCAGc -3'
miRNA:   3'- -GCUCGUag-CGGcGGUCCGCGcCGUCc -5'
23065 3' -62.3 NC_005178.1 + 37248 0.7 0.149201
Target:  5'- -uGGCGUCaaacucgGCCuCCAGGCGCaGCGGGu -3'
miRNA:   3'- gcUCGUAG-------CGGcGGUCCGCGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 10869 0.7 0.153688
Target:  5'- aGAGCGuuacgacgcUCGCgGCUGGGCuCGGcCAGGa -3'
miRNA:   3'- gCUCGU---------AGCGgCGGUCCGcGCC-GUCC- -5'
23065 3' -62.3 NC_005178.1 + 5732 0.7 0.157873
Target:  5'- gGAGCAgaUCGCCGCaucGGUGgCGGCcucGGGc -3'
miRNA:   3'- gCUCGU--AGCGGCGgu-CCGC-GCCG---UCC- -5'
23065 3' -62.3 NC_005178.1 + 1611 0.69 0.162161
Target:  5'- aCGu-CAUCGCCGgaCAGGCGCGacauGCGGGc -3'
miRNA:   3'- -GCucGUAGCGGCg-GUCCGCGC----CGUCC- -5'
23065 3' -62.3 NC_005178.1 + 9408 0.69 0.162161
Target:  5'- gCGAGCG-CGCCguGCCAGGCacucGUcGCAGGc -3'
miRNA:   3'- -GCUCGUaGCGG--CGGUCCG----CGcCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 32891 0.69 0.162161
Target:  5'- aGAGCAUCaGCgGCUGGGUgaucuccaGCGGCGuGGu -3'
miRNA:   3'- gCUCGUAG-CGgCGGUCCG--------CGCCGU-CC- -5'
23065 3' -62.3 NC_005178.1 + 17973 0.69 0.162161
Target:  5'- gGAGCGguccacaaaCGCCuGCCAGGCGCG-CuGGc -3'
miRNA:   3'- gCUCGUa--------GCGG-CGGUCCGCGCcGuCC- -5'
23065 3' -62.3 NC_005178.1 + 18157 0.69 0.175659
Target:  5'- -uGGCGg-GCUggGCCAGGCGCugcGGCAGGu -3'
miRNA:   3'- gcUCGUagCGG--CGGUCCGCG---CCGUCC- -5'
23065 3' -62.3 NC_005178.1 + 29043 0.69 0.175659
Target:  5'- -cGGUGcCGCCcagGCCAGGgGCGcGCAGGg -3'
miRNA:   3'- gcUCGUaGCGG---CGGUCCgCGC-CGUCC- -5'
23065 3' -62.3 NC_005178.1 + 28621 0.69 0.175659
Target:  5'- -cGGCGaCGCCcCCGguGGCGCGGCGGa -3'
miRNA:   3'- gcUCGUaGCGGcGGU--CCGCGCCGUCc -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.