miRNA display CGI


Results 1 - 17 of 17 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
7188 5' -56.9 NC_001900.1 + 43095 0.66 0.578597
Target:  5'- gGGCGugcCCCAUGCCgu-CGCCGuucuugaucagcuCAUGGAg -3'
miRNA:   3'- -UUGC---GGGUACGGaauGCGGU-------------GUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 25939 0.66 0.556677
Target:  5'- cGCGCUCAgcggUGCCUUcUGCUcgauccgGCACGGGu -3'
miRNA:   3'- uUGCGGGU----ACGGAAuGCGG-------UGUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 24470 0.66 0.53608
Target:  5'- --aGCCCAUGCCUUGuccaccacCGCCAgCuccgaGGAg -3'
miRNA:   3'- uugCGGGUACGGAAU--------GCGGU-Gug---CCU- -5'
7188 5' -56.9 NC_001900.1 + 27110 0.67 0.504131
Target:  5'- cGugGCCCAcGCCca--GCCuCACGGGc -3'
miRNA:   3'- -UugCGGGUaCGGaaugCGGuGUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 35640 0.67 0.493663
Target:  5'- cGACGCCCuucuUGCCccggaaccaGCGCCAUgugccucugGCGGGg -3'
miRNA:   3'- -UUGCGGGu---ACGGaa-------UGCGGUG---------UGCCU- -5'
7188 5' -56.9 NC_001900.1 + 15963 0.67 0.493663
Target:  5'- --aGCCCAgaaGCUgauCGCCGCGCuGGAc -3'
miRNA:   3'- uugCGGGUa--CGGaauGCGGUGUG-CCU- -5'
7188 5' -56.9 NC_001900.1 + 516 0.67 0.473034
Target:  5'- -gUGCCCuacGUGCCcuUUACaGCCACcCGGAc -3'
miRNA:   3'- uuGCGGG---UACGG--AAUG-CGGUGuGCCU- -5'
7188 5' -56.9 NC_001900.1 + 13160 0.68 0.433141
Target:  5'- uACGCCCAgcGCCUgaucGCGgCugGCGGu -3'
miRNA:   3'- uUGCGGGUa-CGGAa---UGCgGugUGCCu -5'
7188 5' -56.9 NC_001900.1 + 47344 0.68 0.423476
Target:  5'- cAUGCUCAUGCCcuugggcuugACGCCgucgaacuccaGCGCGGAg -3'
miRNA:   3'- uUGCGGGUACGGaa--------UGCGG-----------UGUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 40200 0.69 0.40454
Target:  5'- -cCGCgCAUGUCgaACGCCAC-CGGGu -3'
miRNA:   3'- uuGCGgGUACGGaaUGCGGUGuGCCU- -5'
7188 5' -56.9 NC_001900.1 + 40439 0.69 0.395275
Target:  5'- gGGCGCCgGUGCCUacCGUUgagaccccgACGCGGAa -3'
miRNA:   3'- -UUGCGGgUACGGAauGCGG---------UGUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 4362 0.69 0.377161
Target:  5'- cAGCGgCCAgcgGCCUgGCuGCCGCAgGGGa -3'
miRNA:   3'- -UUGCgGGUa--CGGAaUG-CGGUGUgCCU- -5'
7188 5' -56.9 NC_001900.1 + 30378 0.69 0.363078
Target:  5'- uGCGCCUugaucuggucgagcuGcGCCUgcaGCGCCGCACGGc -3'
miRNA:   3'- uUGCGGG---------------UaCGGAa--UGCGGUGUGCCu -5'
7188 5' -56.9 NC_001900.1 + 32077 0.73 0.227888
Target:  5'- -cCGUCCAUGCCgagUGCGaCCACACcGGc -3'
miRNA:   3'- uuGCGGGUACGGa--AUGC-GGUGUG-CCu -5'
7188 5' -56.9 NC_001900.1 + 38644 0.73 0.198819
Target:  5'- --aGCCCAUGuCCUUGCGagcccgcUCACGCGGGa -3'
miRNA:   3'- uugCGGGUAC-GGAAUGC-------GGUGUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 15831 0.75 0.155804
Target:  5'- cGugGCUgGUGCCgaagUACGCCAgcguCACGGAg -3'
miRNA:   3'- -UugCGGgUACGGa---AUGCGGU----GUGCCU- -5'
7188 5' -56.9 NC_001900.1 + 29770 1.07 0.000733
Target:  5'- gAACGCCCAUGCCUUACGCCACACGGAg -3'
miRNA:   3'- -UUGCGGGUACGGAAUGCGGUGUGCCU- -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.