miRNA display CGI


Results 1 - 20 of 25 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
29952 3' -54.9 NC_006273.1 + 204885 0.66 0.972312
Target:  5'- cGAGAGGUGa--CGGaGCgccUCACGUCa -3'
miRNA:   3'- uCUCUCCACaucGCC-CGac-AGUGUAG- -5'
29952 3' -54.9 NC_006273.1 + 47404 0.66 0.969479
Target:  5'- -cGGAGGUGcUGGCGGGgUa--ACAUCa -3'
miRNA:   3'- ucUCUCCAC-AUCGCCCgAcagUGUAG- -5'
29952 3' -54.9 NC_006273.1 + 141701 0.67 0.943731
Target:  5'- gGGGGGGGUGaGGgGGGggGUUACGg- -3'
miRNA:   3'- -UCUCUCCACaUCgCCCgaCAGUGUag -5'
29952 3' -54.9 NC_006273.1 + 80085 0.67 0.939156
Target:  5'- cAGcGAGGUGUAGauaCGGaucuGCUGUC-CGUCa -3'
miRNA:   3'- -UCuCUCCACAUC---GCC----CGACAGuGUAG- -5'
29952 3' -54.9 NC_006273.1 + 67838 0.67 0.939156
Target:  5'- ---cGGGUGauguagAGCGGcGCUGUCACcgCa -3'
miRNA:   3'- ucucUCCACa-----UCGCC-CGACAGUGuaG- -5'
29952 3' -54.9 NC_006273.1 + 30365 0.67 0.938686
Target:  5'- cGAGAGGaUGUcgucGCGGcgucgcaGCUcGUCACGUCg -3'
miRNA:   3'- uCUCUCC-ACAu---CGCC-------CGA-CAGUGUAG- -5'
29952 3' -54.9 NC_006273.1 + 35604 0.68 0.92931
Target:  5'- uGGGAGGUGgc-UGGGC--UCACGUCa -3'
miRNA:   3'- uCUCUCCACaucGCCCGacAGUGUAG- -5'
29952 3' -54.9 NC_006273.1 + 238 0.68 0.924035
Target:  5'- --cGGGGUGUguuGGCGGGCcgUGUCuGCGUg -3'
miRNA:   3'- ucuCUCCACA---UCGCCCG--ACAG-UGUAg -5'
29952 3' -54.9 NC_006273.1 + 235069 0.68 0.924035
Target:  5'- --cGGGGUGUguuGGCGGGCcgUGUCuGCGUg -3'
miRNA:   3'- ucuCUCCACA---UCGCCCG--ACAG-UGUAg -5'
29952 3' -54.9 NC_006273.1 + 195131 0.68 0.924035
Target:  5'- --cGGGGUGUguuGGCGGGCcgUGUCuGCGUg -3'
miRNA:   3'- ucuCUCCACA---UCGCCCG--ACAG-UGUAg -5'
29952 3' -54.9 NC_006273.1 + 111428 0.68 0.924035
Target:  5'- aGGAGcacccGGGUGUGGCgcuacGGGUUacaaaaGUCGCGUCu -3'
miRNA:   3'- -UCUC-----UCCACAUCG-----CCCGA------CAGUGUAG- -5'
29952 3' -54.9 NC_006273.1 + 187203 0.68 0.912785
Target:  5'- cGGGGugcGG-GUGGCGGGCUgcGUCGCcuUCg -3'
miRNA:   3'- -UCUCu--CCaCAUCGCCCGA--CAGUGu-AG- -5'
29952 3' -54.9 NC_006273.1 + 12688 0.68 0.906811
Target:  5'- ---uGGGUGUGGUGGGCgaGUCGCu-- -3'
miRNA:   3'- ucucUCCACAUCGCCCGa-CAGUGuag -5'
29952 3' -54.9 NC_006273.1 + 194940 0.69 0.900607
Target:  5'- cGGGGugggugugugccGGGUGUGGCGGGUgUGUCAgGg- -3'
miRNA:   3'- -UCUC------------UCCACAUCGCCCG-ACAGUgUag -5'
29952 3' -54.9 NC_006273.1 + 234878 0.69 0.900607
Target:  5'- cGGGGugggugugugccGGGUGUGGCGGGUgUGUCAgGg- -3'
miRNA:   3'- -UCUC------------UCCACAUCGCCCG-ACAGUgUag -5'
29952 3' -54.9 NC_006273.1 + 47 0.69 0.900607
Target:  5'- cGGGGugggugugugccGGGUGUGGCGGGUgUGUCAgGg- -3'
miRNA:   3'- -UCUC------------UCCACAUCGCCCG-ACAGUgUag -5'
29952 3' -54.9 NC_006273.1 + 163358 0.69 0.873548
Target:  5'- cAGAGAcGUcgGGCGGGaCUGUCGuCGUCa -3'
miRNA:   3'- -UCUCUcCAcaUCGCCC-GACAGU-GUAG- -5'
29952 3' -54.9 NC_006273.1 + 140838 0.69 0.866242
Target:  5'- cAGAGAGGUGUuacaGGCGGuGCgcgGcCGCuUCu -3'
miRNA:   3'- -UCUCUCCACA----UCGCC-CGa--CaGUGuAG- -5'
29952 3' -54.9 NC_006273.1 + 1094 0.7 0.826742
Target:  5'- gGGAcGGGGcGUcgcgggauGGCGGGCUGUUGCGUg -3'
miRNA:   3'- -UCU-CUCCaCA--------UCGCCCGACAGUGUAg -5'
29952 3' -54.9 NC_006273.1 + 41032 0.7 0.826742
Target:  5'- gGGAcGGGGcGUcgcgggauGGCGGGCUGUUGCGUg -3'
miRNA:   3'- -UCU-CUCCaCA--------UCGCCCGACAGUGUAg -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.