miRNA display CGI


Results 1 - 20 of 22 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
18372 3' -56.3 NC_004681.1 + 14184 0.66 0.791285
Target:  5'- gGCGGcuUCUGCGcGCAGcUUGGCGAuGGu -3'
miRNA:   3'- -CGCCc-AGAUGCuCGUCcAGCCGUU-CC- -5'
18372 3' -56.3 NC_004681.1 + 67189 0.66 0.781801
Target:  5'- aCGGG-CcGCGAGgaaauCAGGUCcGCGAGGc -3'
miRNA:   3'- cGCCCaGaUGCUC-----GUCCAGcCGUUCC- -5'
18372 3' -56.3 NC_004681.1 + 72905 0.66 0.762411
Target:  5'- cCGuGGUC-ACGuGCuuGUCGGUAGGGu -3'
miRNA:   3'- cGC-CCAGaUGCuCGucCAGCCGUUCC- -5'
18372 3' -56.3 NC_004681.1 + 33951 0.66 0.760444
Target:  5'- cGCGGGacagguugacacCUGCGAGguaggcgugggaCAGGUCGGCuccgcGGa -3'
miRNA:   3'- -CGCCCa-----------GAUGCUC------------GUCCAGCCGuu---CC- -5'
18372 3' -56.3 NC_004681.1 + 6689 0.66 0.752526
Target:  5'- gGUGGuGUagcCGAGCcGGUaGGCGAGGg -3'
miRNA:   3'- -CGCC-CAgauGCUCGuCCAgCCGUUCC- -5'
18372 3' -56.3 NC_004681.1 + 28809 0.66 0.742528
Target:  5'- uCGGGgu--CGGGCucGUCGGUggGGa -3'
miRNA:   3'- cGCCCagauGCUCGucCAGCCGuuCC- -5'
18372 3' -56.3 NC_004681.1 + 19618 0.67 0.732426
Target:  5'- gGCGuGGUCgaugACG-GCgaGGGUgGGCAAGc -3'
miRNA:   3'- -CGC-CCAGa---UGCuCG--UCCAgCCGUUCc -5'
18372 3' -56.3 NC_004681.1 + 42809 0.67 0.722231
Target:  5'- aCGGGg--GCGAuGCcaugucccgAGGUCGGCAGGc -3'
miRNA:   3'- cGCCCagaUGCU-CG---------UCCAGCCGUUCc -5'
18372 3' -56.3 NC_004681.1 + 27034 0.67 0.711953
Target:  5'- aCGcGGUCgccuuCGAGUccguGGUCGGCGucgAGGg -3'
miRNA:   3'- cGC-CCAGau---GCUCGu---CCAGCCGU---UCC- -5'
18372 3' -56.3 NC_004681.1 + 63472 0.67 0.711953
Target:  5'- cCGaGGUCUGCGAgacgguGUAGGugaagggcguguUCGGCGAGa -3'
miRNA:   3'- cGC-CCAGAUGCU------CGUCC------------AGCCGUUCc -5'
18372 3' -56.3 NC_004681.1 + 55311 0.67 0.701603
Target:  5'- aCGGGUCUGCGcGgAGG-CGuGCGuGGa -3'
miRNA:   3'- cGCCCAGAUGCuCgUCCaGC-CGUuCC- -5'
18372 3' -56.3 NC_004681.1 + 45008 0.67 0.701603
Target:  5'- aUGGGUC--CGGGCAGGUaggcccaggccgUGGCGuAGGa -3'
miRNA:   3'- cGCCCAGauGCUCGUCCA------------GCCGU-UCC- -5'
18372 3' -56.3 NC_004681.1 + 18197 0.68 0.649111
Target:  5'- gGCGaGGUCcuuuauCGAGUAGcccaGUCGGCGgAGGg -3'
miRNA:   3'- -CGC-CCAGau----GCUCGUC----CAGCCGU-UCC- -5'
18372 3' -56.3 NC_004681.1 + 22017 0.69 0.617366
Target:  5'- -aGGcaaugGCGAGCAGGaUGGCGAGGu -3'
miRNA:   3'- cgCCcaga-UGCUCGUCCaGCCGUUCC- -5'
18372 3' -56.3 NC_004681.1 + 68954 0.69 0.617366
Target:  5'- cCGuGGUCgacguCGAGCGGGacUCGGUcGGGa -3'
miRNA:   3'- cGC-CCAGau---GCUCGUCC--AGCCGuUCC- -5'
18372 3' -56.3 NC_004681.1 + 62176 0.69 0.585727
Target:  5'- gGCGGG-C-ACGGGCGGcaagaUCGGCGAGa -3'
miRNA:   3'- -CGCCCaGaUGCUCGUCc----AGCCGUUCc -5'
18372 3' -56.3 NC_004681.1 + 10344 0.69 0.5648
Target:  5'- --uGGUCUcCaAGCAGGUUGGCGAGa -3'
miRNA:   3'- cgcCCAGAuGcUCGUCCAGCCGUUCc -5'
18372 3' -56.3 NC_004681.1 + 29227 0.71 0.473837
Target:  5'- gGCgGGGUCcucgGCGAGUGGGcCGGUcuGGg -3'
miRNA:   3'- -CG-CCCAGa---UGCUCGUCCaGCCGuuCC- -5'
18372 3' -56.3 NC_004681.1 + 15931 0.72 0.435792
Target:  5'- gGCGGGUCggugACGAuggagucgacGCuGGcgucuucaguUCGGCGAGGa -3'
miRNA:   3'- -CGCCCAGa---UGCU----------CGuCC----------AGCCGUUCC- -5'
18372 3' -56.3 NC_004681.1 + 29567 0.72 0.417442
Target:  5'- aGUGGGcagugaUCUACGAGguGGgCGGCAAc- -3'
miRNA:   3'- -CGCCC------AGAUGCUCguCCaGCCGUUcc -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.