miRNA display CGI


Results 1 - 20 of 58 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
18486 3' -52.8 NC_004681.1 + 47205 0.66 0.902822
Target:  5'- cGCCACCGaCaacccugGCCAGuccAUCcgCACCGc -3'
miRNA:   3'- -CGGUGGCaGa------UGGUC---UAGuaGUGGCu -5'
18486 3' -52.8 NC_004681.1 + 54169 0.69 0.785777
Target:  5'- cGCCACCGUCaACaAGGcugUCGUCAUCa- -3'
miRNA:   3'- -CGGUGGCAGaUGgUCU---AGUAGUGGcu -5'
18486 3' -52.8 NC_004681.1 + 15920 0.68 0.82347
Target:  5'- gGCCGCgGUCaagaccauCCAGGcCAUCGCUGGc -3'
miRNA:   3'- -CGGUGgCAGau------GGUCUaGUAGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 34863 0.68 0.841176
Target:  5'- cGCUACCGUCa---AGAUCAUCAauGAg -3'
miRNA:   3'- -CGGUGGCAGauggUCUAGUAGUggCU- -5'
18486 3' -52.8 NC_004681.1 + 54890 0.67 0.849712
Target:  5'- aGCUGcCCGaCUACCAGGUCAagUACCa- -3'
miRNA:   3'- -CGGU-GGCaGAUGGUCUAGUa-GUGGcu -5'
18486 3' -52.8 NC_004681.1 + 10024 0.67 0.858024
Target:  5'- cGCCAUCGUggACCcguacugcGGGUCAUCGCUc- -3'
miRNA:   3'- -CGGUGGCAgaUGG--------UCUAGUAGUGGcu -5'
18486 3' -52.8 NC_004681.1 + 23555 0.67 0.866106
Target:  5'- aCCACCGUCUcugGCaCAGuguUCGUCAgCCa- -3'
miRNA:   3'- cGGUGGCAGA---UG-GUCu--AGUAGU-GGcu -5'
18486 3' -52.8 NC_004681.1 + 47108 0.66 0.902151
Target:  5'- cGCCGCCG-CUgagcgacgagaacGCCgAGggCcgCGCCGAa -3'
miRNA:   3'- -CGGUGGCaGA-------------UGG-UCuaGuaGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 6745 0.66 0.902822
Target:  5'- aGCCACCaUCgACCAG-UCG--GCCGAg -3'
miRNA:   3'- -CGGUGGcAGaUGGUCuAGUagUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 13042 0.69 0.785777
Target:  5'- cGCCGCCaUCgccaaGCUGGAagcucgCAUCGCCGAg -3'
miRNA:   3'- -CGGUGGcAGa----UGGUCUa-----GUAGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 31976 0.69 0.785777
Target:  5'- --gAgCGUgaACCAGAUCAUCGCCa- -3'
miRNA:   3'- cggUgGCAgaUGGUCUAGUAGUGGcu -5'
18486 3' -52.8 NC_004681.1 + 23137 0.69 0.775937
Target:  5'- aGCCAUCcUgaGCCAGGUCGUUGCCu- -3'
miRNA:   3'- -CGGUGGcAgaUGGUCUAGUAGUGGcu -5'
18486 3' -52.8 NC_004681.1 + 49884 0.78 0.303448
Target:  5'- cGCCACUGcUCUACCAGG-CAggcaagcacuacUCACCGAa -3'
miRNA:   3'- -CGGUGGC-AGAUGGUCUaGU------------AGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 59894 0.74 0.48983
Target:  5'- cGCCAgCGUCgacuCCA--UCGUCACCGAc -3'
miRNA:   3'- -CGGUgGCAGau--GGUcuAGUAGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 11777 0.74 0.520718
Target:  5'- gGCCGCU-UCUACgAGAUCGgugccaUCACCGAg -3'
miRNA:   3'- -CGGUGGcAGAUGgUCUAGU------AGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 33965 0.72 0.606167
Target:  5'- gGUC-CCGUCcgcgGCCaAGGUUGUCACCGAc -3'
miRNA:   3'- -CGGuGGCAGa---UGG-UCUAGUAGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 39964 0.72 0.606167
Target:  5'- -gCGCgCGUCggcGCCGGGUCAacUCACCGGc -3'
miRNA:   3'- cgGUG-GCAGa--UGGUCUAGU--AGUGGCU- -5'
18486 3' -52.8 NC_004681.1 + 65260 0.7 0.735234
Target:  5'- aGCCAUCGcCUGCCuuguGGUCGUC-CgCGAc -3'
miRNA:   3'- -CGGUGGCaGAUGGu---CUAGUAGuG-GCU- -5'
18486 3' -52.8 NC_004681.1 + 62543 0.7 0.744559
Target:  5'- -aCACCGUCUACCucGGuGUCAUCcaggagauggaacGCCGGg -3'
miRNA:   3'- cgGUGGCAGAUGG--UC-UAGUAG-------------UGGCU- -5'
18486 3' -52.8 NC_004681.1 + 46186 0.69 0.765952
Target:  5'- aCCACCGaaaUCggACagaAGAUCAUCACCa- -3'
miRNA:   3'- cGGUGGC---AGa-UGg--UCUAGUAGUGGcu -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.