miRNA display CGI


Results 1 - 20 of 49 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
6344 3' -54.8 NC_001847.1 + 4200 0.67 0.862721
Target:  5'- --gGGCCGCGCGCAggcagccaaagcccUGCgcGGUGc-- -3'
miRNA:   3'- cuaCCGGCGCGUGU--------------ACGaaCCACuag -5'
6344 3' -54.8 NC_001847.1 + 6154 0.8 0.229232
Target:  5'- cGGUGGCggugacggCGCGCAgGUGCUcGGUGAUCu -3'
miRNA:   3'- -CUACCG--------GCGCGUgUACGAaCCACUAG- -5'
6344 3' -54.8 NC_001847.1 + 10285 0.67 0.857184
Target:  5'- cGcgGGCCGCGCGCucgccagucaGUGCggcGGUGcugCg -3'
miRNA:   3'- -CuaCCGGCGCGUG----------UACGaa-CCACua-G- -5'
6344 3' -54.8 NC_001847.1 + 12322 0.71 0.665606
Target:  5'- cGGUGGgCGCGCccGCcgGCUcgcUGGUGAg- -3'
miRNA:   3'- -CUACCgGCGCG--UGuaCGA---ACCACUag -5'
6344 3' -54.8 NC_001847.1 + 15101 0.67 0.840785
Target:  5'- --gGGCCGCGCuCAUGCUgacGGcccUGAc- -3'
miRNA:   3'- cuaCCGGCGCGuGUACGAa--CC---ACUag -5'
6344 3' -54.8 NC_001847.1 + 26345 0.66 0.880139
Target:  5'- --aGGCgGCGUACAUGCagcucucccgGGUGGg- -3'
miRNA:   3'- cuaCCGgCGCGUGUACGaa--------CCACUag -5'
6344 3' -54.8 NC_001847.1 + 30610 0.69 0.76779
Target:  5'- -cUGGCCGCgGCGCG-GCggcGGcUGAUCg -3'
miRNA:   3'- cuACCGGCG-CGUGUaCGaa-CC-ACUAG- -5'
6344 3' -54.8 NC_001847.1 + 32514 0.66 0.913639
Target:  5'- -cUGGCCGCGUACAcgcgGCUgucggaGGcGAUg -3'
miRNA:   3'- cuACCGGCGCGUGUa---CGAa-----CCaCUAg -5'
6344 3' -54.8 NC_001847.1 + 33330 0.68 0.823577
Target:  5'- cGUGGCgGCGCGC-UGCgugacGGUGGg- -3'
miRNA:   3'- cUACCGgCGCGUGuACGaa---CCACUag -5'
6344 3' -54.8 NC_001847.1 + 33898 0.66 0.894275
Target:  5'- cGUGGCCGCGgGCGUGCa-GGa---- -3'
miRNA:   3'- cUACCGGCGCgUGUACGaaCCacuag -5'
6344 3' -54.8 NC_001847.1 + 41890 0.67 0.872715
Target:  5'- --cGGCC-CGCGCGgcgagGCagaGGUGGUCg -3'
miRNA:   3'- cuaCCGGcGCGUGUa----CGaa-CCACUAG- -5'
6344 3' -54.8 NC_001847.1 + 46610 0.68 0.832278
Target:  5'- --cGGCCucgcgGCGCACGaGCgUGGUGAa- -3'
miRNA:   3'- cuaCCGG-----CGCGUGUaCGaACCACUag -5'
6344 3' -54.8 NC_001847.1 + 50387 0.67 0.857184
Target:  5'- -cUGGCCGUgGC-CAUGCUcgugcugcgguUGGUGcgCg -3'
miRNA:   3'- cuACCGGCG-CGuGUACGA-----------ACCACuaG- -5'
6344 3' -54.8 NC_001847.1 + 55049 0.72 0.595939
Target:  5'- aGGUGGCCGCGUucgucgcgcgguucaGCcgGC-UGGUGggCa -3'
miRNA:   3'- -CUACCGGCGCG---------------UGuaCGaACCACuaG- -5'
6344 3' -54.8 NC_001847.1 + 57115 0.66 0.880139
Target:  5'- ---cGCCGCGCGCAUGUUgGGgGAc- -3'
miRNA:   3'- cuacCGGCGCGUGUACGAaCCaCUag -5'
6344 3' -54.8 NC_001847.1 + 59505 0.74 0.469827
Target:  5'- gGGUGcGCCGaggcCGCACcgGCUUGGUGcgCu -3'
miRNA:   3'- -CUAC-CGGC----GCGUGuaCGAACCACuaG- -5'
6344 3' -54.8 NC_001847.1 + 62564 0.66 0.880139
Target:  5'- -uUGGCCcagcccGCGCaucGCGUGCa-GGUGGUCc -3'
miRNA:   3'- cuACCGG------CGCG---UGUACGaaCCACUAG- -5'
6344 3' -54.8 NC_001847.1 + 63333 0.66 0.894275
Target:  5'- cGAUGGCguacugGCGCACgAUGUUUGGUa--- -3'
miRNA:   3'- -CUACCGg-----CGCGUG-UACGAACCAcuag -5'
6344 3' -54.8 NC_001847.1 + 68275 0.67 0.844131
Target:  5'- -uUGGgCGCGUACAcgaagcccgagagcGCgUUGGUGAUCg -3'
miRNA:   3'- cuACCgGCGCGUGUa-------------CG-AACCACUAG- -5'
6344 3' -54.8 NC_001847.1 + 69347 0.68 0.823577
Target:  5'- -cUGGCgGCGCugGUGCUggcgcgcgcGGcGGUCu -3'
miRNA:   3'- cuACCGgCGCGugUACGAa--------CCaCUAG- -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.