miRNA display CGI


Results 1 - 20 of 43 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
27665 3' -53.9 NC_005882.1 + 18622 1.1 0.000884
Target:  5'- gCCGCUAACCUGUCGACGAGCCGAUCGc -3'
miRNA:   3'- -GGCGAUUGGACAGCUGCUCGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 16800 0.81 0.096029
Target:  5'- uCCGCUggauuugcGACCUGaacuUCGACGGcGCCGAUCGa -3'
miRNA:   3'- -GGCGA--------UUGGAC----AGCUGCU-CGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 31977 0.8 0.119584
Target:  5'- gCCGCUGACCgauuacGUCGACGuccgaucgccgacGCCGGUCGa -3'
miRNA:   3'- -GGCGAUUGGa-----CAGCUGCu------------CGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 3543 0.74 0.268639
Target:  5'- gCCGCgGGCCUG--GGCGuGCCGGUCGu -3'
miRNA:   3'- -GGCGaUUGGACagCUGCuCGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 23229 0.74 0.268639
Target:  5'- gCGCUGGCCgggcgcggGcCGGCGGGCaCGAUCa -3'
miRNA:   3'- gGCGAUUGGa-------CaGCUGCUCG-GCUAGc -5'
27665 3' -53.9 NC_005882.1 + 23651 0.74 0.290286
Target:  5'- gCGCUAcuucaGCCagcaguucGUCGACGcGCCGAUCGa -3'
miRNA:   3'- gGCGAU-----UGGa-------CAGCUGCuCGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 31965 0.73 0.329357
Target:  5'- uUCGCUAggcaGCCccgUGUCGACGAGCgGGUa- -3'
miRNA:   3'- -GGCGAU----UGG---ACAGCUGCUCGgCUAgc -5'
27665 3' -53.9 NC_005882.1 + 27441 0.73 0.345189
Target:  5'- aCCGUUGACCagaccGUCGAUcagguggGAGCCGAaaUCGg -3'
miRNA:   3'- -GGCGAUUGGa----CAGCUG-------CUCGGCU--AGC- -5'
27665 3' -53.9 NC_005882.1 + 21189 0.72 0.363315
Target:  5'- gCCgGCgcACCgGUCGACGAGCaugccgaGGUCGa -3'
miRNA:   3'- -GG-CGauUGGaCAGCUGCUCGg------CUAGC- -5'
27665 3' -53.9 NC_005882.1 + 12327 0.72 0.363315
Target:  5'- gCGCgUGACggCUGcCGGCGGcGCCGAUCGg -3'
miRNA:   3'- gGCG-AUUG--GACaGCUGCU-CGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 14288 0.72 0.372175
Target:  5'- gCCGCUgcucuugacGACCuUGUCGACG-GCCGcggCGg -3'
miRNA:   3'- -GGCGA---------UUGG-ACAGCUGCuCGGCua-GC- -5'
27665 3' -53.9 NC_005882.1 + 16281 0.71 0.43817
Target:  5'- uCgGCcGGCUUGcCGACGAcGUCGAUCGg -3'
miRNA:   3'- -GgCGaUUGGACaGCUGCU-CGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 30976 0.7 0.489195
Target:  5'- aCCGCgccacGCCgcaUGUUGugcGCGAGUCGGUCGa -3'
miRNA:   3'- -GGCGau---UGG---ACAGC---UGCUCGGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 16371 0.7 0.498677
Target:  5'- aCgGCUuuccgGACCUGUCGAUGugcuucuGGCCGA-CGa -3'
miRNA:   3'- -GgCGA-----UUGGACAGCUGC-------UCGGCUaGC- -5'
27665 3' -53.9 NC_005882.1 + 448 0.7 0.499736
Target:  5'- gCCGCUcgccaacgcGACCUGUUcGCGAGCCccacuucuaccGAUUGa -3'
miRNA:   3'- -GGCGA---------UUGGACAGcUGCUCGG-----------CUAGC- -5'
27665 3' -53.9 NC_005882.1 + 29870 0.69 0.510376
Target:  5'- -aGCUGGCCgccggugcGUCGAuCGAGCUGcUCGa -3'
miRNA:   3'- ggCGAUUGGa-------CAGCU-GCUCGGCuAGC- -5'
27665 3' -53.9 NC_005882.1 + 23765 0.69 0.52111
Target:  5'- cCCGUUcACCgacUCGACGAGCgaguCGAUCa -3'
miRNA:   3'- -GGCGAuUGGac-AGCUGCUCG----GCUAGc -5'
27665 3' -53.9 NC_005882.1 + 25600 0.69 0.53193
Target:  5'- gCCGCUugcuucgccugGACCUGaUCGAuuguccggcCGAGgCGGUCGu -3'
miRNA:   3'- -GGCGA-----------UUGGAC-AGCU---------GCUCgGCUAGC- -5'
27665 3' -53.9 NC_005882.1 + 6995 0.69 0.53193
Target:  5'- -aGCUGACCggccaaacCGGCGAGCUGAagcUCGa -3'
miRNA:   3'- ggCGAUUGGaca-----GCUGCUCGGCU---AGC- -5'
27665 3' -53.9 NC_005882.1 + 18554 0.69 0.542831
Target:  5'- gCUGC-AACCUGaagCGGuCGAGCCGGUg- -3'
miRNA:   3'- -GGCGaUUGGACa--GCU-GCUCGGCUAgc -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.