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
15848 5' -56.3 NC_004065.1 + 87336 1.1 0.003428
Target:  5'- gUCCAGGAGCAGCCCGAUAUCGCUCACu -3'
miRNA:   3'- -AGGUCCUCGUCGGGCUAUAGCGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 137999 0.78 0.371525
Target:  5'- cUCCGGGuGUacGGUCUGAUAUCGCUUGCg -3'
miRNA:   3'- -AGGUCCuCG--UCGGGCUAUAGCGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 144191 0.76 0.447672
Target:  5'- gUCCAGG-GCcagGGCUCGAUAUCGCUUguuGCg -3'
miRNA:   3'- -AGGUCCuCG---UCGGGCUAUAGCGAG---UG- -5'
15848 5' -56.3 NC_004065.1 + 6171 0.75 0.493536
Target:  5'- gCCGGGccgGGCGGCCgaguaCGAguUGUCGCUCGCg -3'
miRNA:   3'- aGGUCC---UCGUCGG-----GCU--AUAGCGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 138318 0.74 0.540459
Target:  5'- -gCGGGAGCucgcggacaucguGGCCgCGAUGUCGCUCuGCg -3'
miRNA:   3'- agGUCCUCG-------------UCGG-GCUAUAGCGAG-UG- -5'
15848 5' -56.3 NC_004065.1 + 81639 0.74 0.570912
Target:  5'- gUCCAGGAcaucaGCAGCaugucuCUGGUGUCGCUgACg -3'
miRNA:   3'- -AGGUCCU-----CGUCG------GGCUAUAGCGAgUG- -5'
15848 5' -56.3 NC_004065.1 + 84679 0.73 0.64084
Target:  5'- aCCGGGGGCAGCCgagaugaggCGcccugugucgaGUGUCGCUCGg -3'
miRNA:   3'- aGGUCCUCGUCGG---------GC-----------UAUAGCGAGUg -5'
15848 5' -56.3 NC_004065.1 + 195103 0.72 0.659869
Target:  5'- cCCAGGGGCGucagcucGCCggCGGUGUCGC-CGCa -3'
miRNA:   3'- aGGUCCUCGU-------CGG--GCUAUAGCGaGUG- -5'
15848 5' -56.3 NC_004065.1 + 110048 0.72 0.660869
Target:  5'- cUCCAGGAGCAGCacuaCCucagGUCgggGCUCACg -3'
miRNA:   3'- -AGGUCCUCGUCG----GGcua-UAG---CGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 42601 0.71 0.700595
Target:  5'- cUUCAGGAGCGcGCUgGGgugCGCUCGCc -3'
miRNA:   3'- -AGGUCCUCGU-CGGgCUauaGCGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 90745 0.71 0.729838
Target:  5'- gCUcGGAGCAGCgucCCGAUGUCGUagACg -3'
miRNA:   3'- aGGuCCUCGUCG---GGCUAUAGCGagUG- -5'
15848 5' -56.3 NC_004065.1 + 120456 0.7 0.785898
Target:  5'- gCCAGGAgacagGCGGCCaccuCGAgGUCGCUgACg -3'
miRNA:   3'- aGGUCCU-----CGUCGG----GCUaUAGCGAgUG- -5'
15848 5' -56.3 NC_004065.1 + 61444 0.7 0.785898
Target:  5'- cCCAGGGcCGGCCCGAcc-CGCUC-Cg -3'
miRNA:   3'- aGGUCCUcGUCGGGCUauaGCGAGuG- -5'
15848 5' -56.3 NC_004065.1 + 112855 0.7 0.79394
Target:  5'- cCCAGGGGCGGaCCCcgucggcgcugucGGUGcCGUUCACc -3'
miRNA:   3'- aGGUCCUCGUC-GGG-------------CUAUaGCGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 179341 0.7 0.794827
Target:  5'- -gCAGGAGCAGCCC-AUGgacCUCACc -3'
miRNA:   3'- agGUCCUCGUCGGGcUAUagcGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 103195 0.7 0.794827
Target:  5'- gUCCAGGAGCAcGCgCuuUGUCGCUagguggcgaCACg -3'
miRNA:   3'- -AGGUCCUCGU-CGgGcuAUAGCGA---------GUG- -5'
15848 5' -56.3 NC_004065.1 + 5736 0.69 0.812253
Target:  5'- gUCGGGAagaucGCAGCCuCGGUAUCGC-CGa -3'
miRNA:   3'- aGGUCCU-----CGUCGG-GCUAUAGCGaGUg -5'
15848 5' -56.3 NC_004065.1 + 52247 0.69 0.819893
Target:  5'- cCCAGaggcgaaGAGCAGCgCUGGUcguUCGCUUACa -3'
miRNA:   3'- aGGUC-------CUCGUCG-GGCUAu--AGCGAGUG- -5'
15848 5' -56.3 NC_004065.1 + 159347 0.69 0.82905
Target:  5'- gUCCAGGcccucgGGCAGCCUGAUGcggUGCUgGg -3'
miRNA:   3'- -AGGUCC------UCGUCGGGCUAUa--GCGAgUg -5'
15848 5' -56.3 NC_004065.1 + 6031 0.69 0.82905
Target:  5'- cCCAGauuacAGCGGUCCGGacacGUUGCUCACa -3'
miRNA:   3'- aGGUCc----UCGUCGGGCUa---UAGCGAGUG- -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.