miRNA display CGI


Results 1 - 20 of 199 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
21397 3' -54.2 NC_004812.1 + 129356 1.1 0.003402
Target:  5'- uGCGGCAUCAGCCACCUGGACAUCAAGu -3'
miRNA:   3'- -CGCCGUAGUCGGUGGACCUGUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 107212 0.88 0.091154
Target:  5'- aCGGCGcgGGCCGCCUGGGCGUCGAGg -3'
miRNA:   3'- cGCCGUagUCGGUGGACCUGUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 137398 0.81 0.268834
Target:  5'- -gGGCAUCAuaCACCgGGACAUCAAGa -3'
miRNA:   3'- cgCCGUAGUcgGUGGaCCUGUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 128947 0.79 0.339883
Target:  5'- cGCGGCGcCAGCCGCCgcGGGgGUCGGGc -3'
miRNA:   3'- -CGCCGUaGUCGGUGGa-CCUgUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 3439 0.79 0.339883
Target:  5'- cGCGGCGcCAGCCGCCgcGGGgGUCGGGc -3'
miRNA:   3'- -CGCCGUaGUCGGUGGa-CCUgUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 97996 0.79 0.347693
Target:  5'- cGCGaaGCuccUCAGCCGCgaGGACAUCGAGg -3'
miRNA:   3'- -CGC--CGu--AGUCGGUGgaCCUGUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 39092 0.78 0.400655
Target:  5'- cGCGGCA-CGGCCACCgacggccgcgucgcGGugGUCAGGu -3'
miRNA:   3'- -CGCCGUaGUCGGUGGa-------------CCugUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 148931 0.76 0.46036
Target:  5'- gGCGGCGUCGGCgACgacGGugGUCGGGg -3'
miRNA:   3'- -CGCCGUAGUCGgUGga-CCugUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 23423 0.76 0.46036
Target:  5'- gGCGGCGUCGGCgACgacGGugGUCGGGg -3'
miRNA:   3'- -CGCCGUAGUCGgUGga-CCugUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 130572 0.76 0.479368
Target:  5'- cGgGGCGUCcgggGGCC-CCUGGACGUgGAGc -3'
miRNA:   3'- -CgCCGUAG----UCGGuGGACCUGUAgUUC- -5'
21397 3' -54.2 NC_004812.1 + 133167 0.74 0.558793
Target:  5'- cGCGGCAaacgCGGCCGCCaGGcACAcCAGGa -3'
miRNA:   3'- -CGCCGUa---GUCGGUGGaCC-UGUaGUUC- -5'
21397 3' -54.2 NC_004812.1 + 130737 0.74 0.569017
Target:  5'- aGCGGCGUCGGCCucgcgGCCgucgGGGCGcgcCGAGu -3'
miRNA:   3'- -CGCCGUAGUCGG-----UGGa---CCUGUa--GUUC- -5'
21397 3' -54.2 NC_004812.1 + 81803 0.74 0.569017
Target:  5'- gGCGGCGUCGGCC-CC-GGGCucCAGGa -3'
miRNA:   3'- -CGCCGUAGUCGGuGGaCCUGuaGUUC- -5'
21397 3' -54.2 NC_004812.1 + 129243 0.73 0.610305
Target:  5'- gGCGGUacAUCGGCCACCUGGcuggGCcgCGc- -3'
miRNA:   3'- -CGCCG--UAGUCGGUGGACC----UGuaGUuc -5'
21397 3' -54.2 NC_004812.1 + 136301 0.73 0.610305
Target:  5'- cGCGGCccCGGgCG-CUGGACGUCAGGa -3'
miRNA:   3'- -CGCCGuaGUCgGUgGACCUGUAGUUC- -5'
21397 3' -54.2 NC_004812.1 + 98220 0.73 0.620687
Target:  5'- -aGGCggCGGCCGCCUGGucuCcgCGGGg -3'
miRNA:   3'- cgCCGuaGUCGGUGGACCu--GuaGUUC- -5'
21397 3' -54.2 NC_004812.1 + 3171 0.73 0.620687
Target:  5'- uCGGgGUCGGCgACCUGGcGCAUCcAGg -3'
miRNA:   3'- cGCCgUAGUCGgUGGACC-UGUAGuUC- -5'
21397 3' -54.2 NC_004812.1 + 128680 0.73 0.620687
Target:  5'- uCGGgGUCGGCgACCUGGcGCAUCcAGg -3'
miRNA:   3'- cGCCgUAGUCGgUGGACC-UGUAGuUC- -5'
21397 3' -54.2 NC_004812.1 + 98597 0.73 0.620687
Target:  5'- cGCGGCAUCA-UCGCCgagggcgGGGCGUCGGu -3'
miRNA:   3'- -CGCCGUAGUcGGUGGa------CCUGUAGUUc -5'
21397 3' -54.2 NC_004812.1 + 121283 0.73 0.662225
Target:  5'- cGCGGCccggGGCCGCCUcGGGCAggCGAGu -3'
miRNA:   3'- -CGCCGuag-UCGGUGGA-CCUGUa-GUUC- -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.