miRNA display CGI


Results 1 - 20 of 49 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
12904 5' -62.1 NC_003387.1 + 10256 1.08 0.000253
Target:  5'- cCGAGCGCGGGCUCAAGGUCGCCCCGAa -3'
miRNA:   3'- -GCUCGCGCCCGAGUUCCAGCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 50609 0.79 0.048702
Target:  5'- cCGAGCcaccGCGGGCUCAGGGgUGCCUCGu -3'
miRNA:   3'- -GCUCG----CGCCCGAGUUCCaGCGGGGCu -5'
12904 5' -62.1 NC_003387.1 + 37985 0.75 0.084619
Target:  5'- cCGAGCcacGCGGGCagcGGGUCGCCCuCGGg -3'
miRNA:   3'- -GCUCG---CGCCCGaguUCCAGCGGG-GCU- -5'
12904 5' -62.1 NC_003387.1 + 1111 0.75 0.091584
Target:  5'- gCGAGCGCGGGUUCGgccguGGGUucgccggugucgaCGUCCUGAu -3'
miRNA:   3'- -GCUCGCGCCCGAGU-----UCCA-------------GCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 36116 0.74 0.114025
Target:  5'- cCGAGuCGaCGcGGUUCGAGGUCgucgagugaGCCCCGAc -3'
miRNA:   3'- -GCUC-GC-GC-CCGAGUUCCAG---------CGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 34226 0.73 0.130346
Target:  5'- -aGGUGCGGGUcgacccaggcgUCAGGGUCGCCCg-- -3'
miRNA:   3'- gcUCGCGCCCG-----------AGUUCCAGCGGGgcu -5'
12904 5' -62.1 NC_003387.1 + 51363 0.72 0.137095
Target:  5'- aCGAGCugGCaGGGCUCGGGGUCGUCguccucgUCGAg -3'
miRNA:   3'- -GCUCG--CG-CCCGAGUUCCAGCGG-------GGCU- -5'
12904 5' -62.1 NC_003387.1 + 4554 0.72 0.148799
Target:  5'- gCGGGCucggccuucgcgGCGGGCUCGGcGGUCGgCUCGGc -3'
miRNA:   3'- -GCUCG------------CGCCCGAGUU-CCAGCgGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 30236 0.72 0.152765
Target:  5'- gCGAucGCGCGGGCcuggUCgAGGGUgGCCUCGGu -3'
miRNA:   3'- -GCU--CGCGCCCG----AG-UUCCAgCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 50541 0.72 0.152765
Target:  5'- aCGAccuCGCGGGC-CGGGGUCGgCUCGAc -3'
miRNA:   3'- -GCUc--GCGCCCGaGUUCCAGCgGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 19610 0.71 0.160985
Target:  5'- aCGAGCGCGaucGGCagCAGcGaGUUGCCCCGGu -3'
miRNA:   3'- -GCUCGCGC---CCGa-GUU-C-CAGCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 18559 0.71 0.165243
Target:  5'- uCGAGCGCaaGGC-CGAGGgcgaCGCCCUGGu -3'
miRNA:   3'- -GCUCGCGc-CCGaGUUCCa---GCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 26212 0.71 0.165243
Target:  5'- aCGAcGUGCGGcGCuUCAuucacAGcGUCGCCCCGGc -3'
miRNA:   3'- -GCU-CGCGCC-CG-AGU-----UC-CAGCGGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 28016 0.71 0.174063
Target:  5'- aCGAGC-CGGaaccGCUCGGGGUCGCggCCGAc -3'
miRNA:   3'- -GCUCGcGCC----CGAGUUCCAGCGg-GGCU- -5'
12904 5' -62.1 NC_003387.1 + 40859 0.71 0.178628
Target:  5'- gCGAGCGCGGGaucuuggUCGAGG-CGCaCCuCGGu -3'
miRNA:   3'- -GCUCGCGCCCg------AGUUCCaGCG-GG-GCU- -5'
12904 5' -62.1 NC_003387.1 + 41537 0.7 0.197462
Target:  5'- gGGGCGgGGGCagucagggcggcgUCAGGGcCGCgCCGGu -3'
miRNA:   3'- gCUCGCgCCCG-------------AGUUCCaGCGgGGCU- -5'
12904 5' -62.1 NC_003387.1 + 46998 0.7 0.221323
Target:  5'- aCGAGCGCGGGCcgCcuGGUgcucgacuucauuggCGgCCCGGc -3'
miRNA:   3'- -GCUCGCGCCCGa-GuuCCA---------------GCgGGGCU- -5'
12904 5' -62.1 NC_003387.1 + 6792 0.69 0.226949
Target:  5'- cCGAGCGCGacauggucgcccugcGGCUCAAGGcgcgguUCGCCUa-- -3'
miRNA:   3'- -GCUCGCGC---------------CCGAGUUCC------AGCGGGgcu -5'
12904 5' -62.1 NC_003387.1 + 6849 0.69 0.236202
Target:  5'- uGAGCGCGaccGCUCAGGG-CGCCaacaagacgCCGGu -3'
miRNA:   3'- gCUCGCGCc--CGAGUUCCaGCGG---------GGCU- -5'
12904 5' -62.1 NC_003387.1 + 7959 0.69 0.236202
Target:  5'- aCGAGUGCGGccgacCUCAAGGUCgGUgCCGu -3'
miRNA:   3'- -GCUCGCGCCc----GAGUUCCAG-CGgGGCu -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.