miRNA display CGI


Results 1 - 15 of 15 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
16673 3' -47.2 NC_004156.1 + 158518 0.66 0.999986
Target:  5'- gGGUGCcaccgccgGAGCUUacaUCGUCGGUGg -3'
miRNA:   3'- -CCAUGuua-----CUUGAGcagAGUAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 94748 0.66 0.999986
Target:  5'- aGUACAGUGuaGACUCGgaCUCuUCGGa- -3'
miRNA:   3'- cCAUGUUAC--UUGAGCa-GAGuAGCCac -5'
16673 3' -47.2 NC_004156.1 + 130243 0.67 0.999975
Target:  5'- cGUACcga-GACUCGUCUCGUuuacUGGUGc -3'
miRNA:   3'- cCAUGuuacUUGAGCAGAGUA----GCCAC- -5'
16673 3' -47.2 NC_004156.1 + 89841 0.67 0.999966
Target:  5'- --aGCGGUGcAAUUCGUCUCAUU-GUGa -3'
miRNA:   3'- ccaUGUUAC-UUGAGCAGAGUAGcCAC- -5'
16673 3' -47.2 NC_004156.1 + 22706 0.67 0.999966
Target:  5'- aGUGCAGUGuaGACUCGgugC-UCGGUGc -3'
miRNA:   3'- cCAUGUUAC--UUGAGCagaGuAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 19739 0.67 0.99994
Target:  5'- cGGUACAcgGGcaucGCU-GUCggUAUCGGUGu -3'
miRNA:   3'- -CCAUGUuaCU----UGAgCAGa-GUAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 102299 0.68 0.999921
Target:  5'- uGGUgGCGGUGGugUUGUUacuggUGUCGGUGg -3'
miRNA:   3'- -CCA-UGUUACUugAGCAGa----GUAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 152880 0.68 0.999828
Target:  5'- cGGUGCGucUGAuucAgUCGUUgcugggCAUCGGUGa -3'
miRNA:   3'- -CCAUGUu-ACU---UgAGCAGa-----GUAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 193038 0.68 0.99978
Target:  5'- cGGUcaACAAuUGAACaUCGUUgCAUCGGUu -3'
miRNA:   3'- -CCA--UGUU-ACUUG-AGCAGaGUAGCCAc -5'
16673 3' -47.2 NC_004156.1 + 141526 0.69 0.999746
Target:  5'- uGGUGCucuuUGAACUCGgcugcacaggcuUgggaaucuccgagucCUCAUCGGUGg -3'
miRNA:   3'- -CCAUGuu--ACUUGAGC------------A---------------GAGUAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 22585 0.69 0.999561
Target:  5'- cGGUGCucgGAGCUCGgugC-UCGGUGc -3'
miRNA:   3'- -CCAUGuuaCUUGAGCagaGuAGCCAC- -5'
16673 3' -47.2 NC_004156.1 + 114142 0.7 0.998219
Target:  5'- gGGUGuCGAUGAGCUUGcgaaacuuuagCUCAUCGGc- -3'
miRNA:   3'- -CCAU-GUUACUUGAGCa----------GAGUAGCCac -5'
16673 3' -47.2 NC_004156.1 + 39186 0.73 0.985495
Target:  5'- cGGUGCcuucuuuGGUGGugUCGcCUCGUcCGGUGa -3'
miRNA:   3'- -CCAUG-------UUACUugAGCaGAGUA-GCCAC- -5'
16673 3' -47.2 NC_004156.1 + 225939 0.74 0.983851
Target:  5'- --gACAuUGAACUCGUUUCAUCuGGUc -3'
miRNA:   3'- ccaUGUuACUUGAGCAGAGUAG-CCAc -5'
16673 3' -47.2 NC_004156.1 + 80409 1.13 0.019099
Target:  5'- aGGUACAAUGAACUCGUCUCAUCGGUGg -3'
miRNA:   3'- -CCAUGUUACUUGAGCAGAGUAGCCAC- -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.