miRNA display CGI


Results 1 - 12 of 12 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
16640 3' -48.3 NC_004156.1 + 39493 0.66 0.99968
Target:  5'- gGUGUACUCuuAUUUGGAGu---UGCa -3'
miRNA:   3'- -UACGUGAGuuUGAACCUCucuuACGc -5'
16640 3' -48.3 NC_004156.1 + 104433 0.66 0.99968
Target:  5'- -gGCAC-CAGugUUGGuGGuGGAUGCa -3'
miRNA:   3'- uaCGUGaGUUugAACCuCU-CUUACGc -5'
16640 3' -48.3 NC_004156.1 + 84909 0.66 0.99968
Target:  5'- cAUGCAaUC-GACaUGGAGGGAGUcGCGu -3'
miRNA:   3'- -UACGUgAGuUUGaACCUCUCUUA-CGC- -5'
16640 3' -48.3 NC_004156.1 + 225460 0.67 0.999597
Target:  5'- gGUGUuuagaggaauGCUUAGAgUUGGAG-GAAUGCu -3'
miRNA:   3'- -UACG----------UGAGUUUgAACCUCuCUUACGc -5'
16640 3' -48.3 NC_004156.1 + 97523 0.67 0.999597
Target:  5'- gGUGCGCUUGuccaucacCUUGGAGccaaaguGAAUGCGu -3'
miRNA:   3'- -UACGUGAGUuu------GAACCUCu------CUUACGC- -5'
16640 3' -48.3 NC_004156.1 + 127809 0.68 0.998589
Target:  5'- -cGUACUCGGugUcGGAGgguAGAGUGUGc -3'
miRNA:   3'- uaCGUGAGUUugAaCCUC---UCUUACGC- -5'
16640 3' -48.3 NC_004156.1 + 216945 0.68 0.997955
Target:  5'- -aGCAC-CGAAgagGGuGAGAAUGCGg -3'
miRNA:   3'- uaCGUGaGUUUgaaCCuCUCUUACGC- -5'
16640 3' -48.3 NC_004156.1 + 146251 0.7 0.993596
Target:  5'- gAUGCACUCGuccaUUGGAGAu-GUGCu -3'
miRNA:   3'- -UACGUGAGUuug-AACCUCUcuUACGc -5'
16640 3' -48.3 NC_004156.1 + 48727 0.7 0.993596
Target:  5'- aAUGUuuaaAGACUUGGAGAGAAccgGCGa -3'
miRNA:   3'- -UACGugagUUUGAACCUCUCUUa--CGC- -5'
16640 3' -48.3 NC_004156.1 + 123436 0.74 0.935491
Target:  5'- cUGCGCUCAAACcca-AGAGAGUGCa -3'
miRNA:   3'- uACGUGAGUUUGaaccUCUCUUACGc -5'
16640 3' -48.3 NC_004156.1 + 45092 0.78 0.802729
Target:  5'- cAUGCGCUUAAACaUGGAGGGucuGAUGCu -3'
miRNA:   3'- -UACGUGAGUUUGaACCUCUC---UUACGc -5'
16640 3' -48.3 NC_004156.1 + 81310 1.09 0.021003
Target:  5'- gAUGCACUCAAACUUGGAGAGAAUGCGa -3'
miRNA:   3'- -UACGUGAGUUUGAACCUCUCUUACGC- -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.