miRNA display CGI


Results 1 - 18 of 18 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
29935 3' -45.2 NC_006273.1 + 32567 0.66 1
Target:  5'- uGGCGGuuuGAGGGACAAuuuaauccucacaucGCAUCAg--- -3'
miRNA:   3'- -CUGUCu--CUCCCUGUUu--------------UGUAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 231675 0.66 1
Target:  5'- uGGgGGGGGGGGGCAGgaagcuugguGGCGguguUCAUUAAa -3'
miRNA:   3'- -CUgUCUCUCCCUGUU----------UUGU----AGUAAUU- -5'
29935 3' -45.2 NC_006273.1 + 140280 0.66 0.999999
Target:  5'- aGCAGuGGGGGAgGgGAGCGUCAc--- -3'
miRNA:   3'- cUGUCuCUCCCUgU-UUUGUAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 34172 0.66 0.999999
Target:  5'- cGACAGAGAGGuGuaGCGGGcugucACAUCAa--- -3'
miRNA:   3'- -CUGUCUCUCC-C--UGUUU-----UGUAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 206717 0.66 0.999999
Target:  5'- uGACGGuGAGcGAUAAAGCAcCGUUAAu -3'
miRNA:   3'- -CUGUCuCUCcCUGUUUUGUaGUAAUU- -5'
29935 3' -45.2 NC_006273.1 + 40686 0.66 0.999999
Target:  5'- gGACAGcGGcgauguggcaGGGGACAcGACAUCAUc-- -3'
miRNA:   3'- -CUGUC-UC----------UCCCUGUuUUGUAGUAauu -5'
29935 3' -45.2 NC_006273.1 + 210159 0.67 0.999998
Target:  5'- gGGC-GAGAGGGugGAcAACggCGUUGAc -3'
miRNA:   3'- -CUGuCUCUCCCugUU-UUGuaGUAAUU- -5'
29935 3' -45.2 NC_006273.1 + 197805 0.67 0.999998
Target:  5'- aGACGGAGGGGGAgAauAAACAgu-UUAc -3'
miRNA:   3'- -CUGUCUCUCCCUgU--UUUGUaguAAUu -5'
29935 3' -45.2 NC_006273.1 + 228737 0.67 0.999995
Target:  5'- gGACGGGGAaacGGGugGAAACAgCGUc-- -3'
miRNA:   3'- -CUGUCUCU---CCCugUUUUGUaGUAauu -5'
29935 3' -45.2 NC_006273.1 + 41058 0.68 0.999986
Target:  5'- uGACuGGGAGGcGAaauGACGUCGUUGu -3'
miRNA:   3'- -CUGuCUCUCC-CUguuUUGUAGUAAUu -5'
29935 3' -45.2 NC_006273.1 + 190389 0.68 0.999986
Target:  5'- --aGGAGAGGGACGGGAacgAUCAc--- -3'
miRNA:   3'- cugUCUCUCCCUGUUUUg--UAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 157891 0.68 0.999981
Target:  5'- aGGgGGAGAGGaGACAGAACAa------ -3'
miRNA:   3'- -CUgUCUCUCC-CUGUUUUGUaguaauu -5'
29935 3' -45.2 NC_006273.1 + 156214 0.69 0.999952
Target:  5'- aGCAGcacguuaccGGAGGGGCucGAAACAUCAUc-- -3'
miRNA:   3'- cUGUC---------UCUCCCUG--UUUUGUAGUAauu -5'
29935 3' -45.2 NC_006273.1 + 190062 0.69 0.999936
Target:  5'- cGACGGcGGGGGGACGAAcacCGUCGg--- -3'
miRNA:   3'- -CUGUC-UCUCCCUGUUUu--GUAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 231967 0.73 0.996463
Target:  5'- cGACGGGGGGGGGgGGGGCGUacgAUUAAu -3'
miRNA:   3'- -CUGUCUCUCCCUgUUUUGUAg--UAAUU- -5'
29935 3' -45.2 NC_006273.1 + 41016 0.73 0.995758
Target:  5'- gGACGGGGggugugcGGGGACGGGGCGUCGc--- -3'
miRNA:   3'- -CUGUCUC-------UCCCUGUUUUGUAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 1078 0.73 0.995758
Target:  5'- gGACGGGGggugugcGGGGACGGGGCGUCGc--- -3'
miRNA:   3'- -CUGUCUC-------UCCCUGUUUUGUAGUaauu -5'
29935 3' -45.2 NC_006273.1 + 59106 1.08 0.049676
Target:  5'- aGACAGAGAGGGACAAAACAUCAUUAAa -3'
miRNA:   3'- -CUGUCUCUCCCUGUUUUGUAGUAAUU- -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.