miRNA display CGI


Results 1 - 20 of 55 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
19301 3' -56.1 NC_004685.1 + 2688 0.65 0.777119
Target:  5'- aCGCGGCCGCugucgccgccaucaCCGGCAccGUGAUgAUGGGg -3'
miRNA:   3'- -GUGCCGGUG--------------GGCUGUc-CACUA-UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 31058 0.66 0.770278
Target:  5'- aGCuuuGCCGCCCGGCuGGUugagguugccGAUGCGGu -3'
miRNA:   3'- gUGc--CGGUGGGCUGuCCA----------CUAUGUCc -5'
19301 3' -56.1 NC_004685.1 + 15136 0.66 0.770278
Target:  5'- gAUGGCCguGCUCaGguGGUGGUGCuGGg -3'
miRNA:   3'- gUGCCGG--UGGGcUguCCACUAUGuCC- -5'
19301 3' -56.1 NC_004685.1 + 3299 0.66 0.770278
Target:  5'- gCAUGGCUacGCCuCGGgGGGU--UGCAGGu -3'
miRNA:   3'- -GUGCCGG--UGG-GCUgUCCAcuAUGUCC- -5'
19301 3' -56.1 NC_004685.1 + 30130 0.66 0.763371
Target:  5'- uCGCGGCCgcacucgGCCCGgcagccccggccaucGCAGGUaucGCGGGa -3'
miRNA:   3'- -GUGCCGG-------UGGGC---------------UGUCCAcuaUGUCC- -5'
19301 3' -56.1 NC_004685.1 + 45934 0.66 0.760391
Target:  5'- aGCuGGaCCuGCCCGACAcggcgacgcuGGUGGaGCAGGu -3'
miRNA:   3'- gUG-CC-GG-UGGGCUGU----------CCACUaUGUCC- -5'
19301 3' -56.1 NC_004685.1 + 39209 0.66 0.757401
Target:  5'- cCACGcGCCGCCUGGCGgcggcuucggcgccGGcUGGgggACGGGc -3'
miRNA:   3'- -GUGC-CGGUGGGCUGU--------------CC-ACUa--UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 36189 0.66 0.750382
Target:  5'- gCugGGCCACCacugugCGGCcuucaccGGUGGUGCccAGGu -3'
miRNA:   3'- -GugCCGGUGG------GCUGu------CCACUAUG--UCC- -5'
19301 3' -56.1 NC_004685.1 + 61734 0.66 0.747356
Target:  5'- uUAUGGCCAgCCGGaugaucgccgucgcCAGcGUGAUGgcCAGGa -3'
miRNA:   3'- -GUGCCGGUgGGCU--------------GUC-CACUAU--GUCC- -5'
19301 3' -56.1 NC_004685.1 + 31807 0.66 0.740258
Target:  5'- cCACGuGCaCACCCGGCAGucggcGUcGAUcccgcugccGCAGGg -3'
miRNA:   3'- -GUGC-CG-GUGGGCUGUC-----CA-CUA---------UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 17676 0.66 0.730032
Target:  5'- cCGgGGCCGcCCCGGCGucGGcacUGAU-CAGGg -3'
miRNA:   3'- -GUgCCGGU-GGGCUGU--CC---ACUAuGUCC- -5'
19301 3' -56.1 NC_004685.1 + 2775 0.67 0.719713
Target:  5'- cCGCGG-CGCgCGACGGGcggGGUAguGGu -3'
miRNA:   3'- -GUGCCgGUGgGCUGUCCa--CUAUguCC- -5'
19301 3' -56.1 NC_004685.1 + 25149 0.67 0.719713
Target:  5'- aGCGGCagGCCCagcgcguuGCGGGUGucagGCAGGu -3'
miRNA:   3'- gUGCCGg-UGGGc-------UGUCCACua--UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 63228 0.67 0.709312
Target:  5'- uGCGGCCGCcaggggugCCGGgcuguucgggcCAGGUGAUGCccuuGGc -3'
miRNA:   3'- gUGCCGGUG--------GGCU-----------GUCCACUAUGu---CC- -5'
19301 3' -56.1 NC_004685.1 + 5166 0.67 0.709312
Target:  5'- gACGGCCACgUCGucguCAGGUGGaagccGCAGa -3'
miRNA:   3'- gUGCCGGUG-GGCu---GUCCACUa----UGUCc -5'
19301 3' -56.1 NC_004685.1 + 20027 0.67 0.69884
Target:  5'- --gGGCgACCCGcCGGGgcgGAUcaucGCGGGg -3'
miRNA:   3'- gugCCGgUGGGCuGUCCa--CUA----UGUCC- -5'
19301 3' -56.1 NC_004685.1 + 18716 0.67 0.69884
Target:  5'- gCugGGCCaACCCGcUGGGUGGa--GGGa -3'
miRNA:   3'- -GugCCGG-UGGGCuGUCCACUaugUCC- -5'
19301 3' -56.1 NC_004685.1 + 1092 0.67 0.688306
Target:  5'- aUugGGCCGgCCGGCuGGUGuu-CGGu -3'
miRNA:   3'- -GugCCGGUgGGCUGuCCACuauGUCc -5'
19301 3' -56.1 NC_004685.1 + 39733 0.67 0.688306
Target:  5'- gCGCGGCCACCC-ACuccuuGGUGAcGguGa -3'
miRNA:   3'- -GUGCCGGUGGGcUGu----CCACUaUguCc -5'
19301 3' -56.1 NC_004685.1 + 68485 0.67 0.688306
Target:  5'- uGCGGCCcccuggcCCCGcCAGuccGAUGCGGGg -3'
miRNA:   3'- gUGCCGGu------GGGCuGUCca-CUAUGUCC- -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.