miRNA display CGI


Results 1 - 20 of 54 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
13344 3' -52.3 NC_003409.1 + 122236 1.15 0.002377
Target:  5'- aGCGCCAAGUGCAAACCCUAAUGGGCCu -3'
miRNA:   3'- -CGCGGUUCACGUUUGGGAUUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 115806 0.77 0.511918
Target:  5'- gGCacCCAAGgcgcUGCAGACCCUucagugcgagguAAUGGGCCa -3'
miRNA:   3'- -CGc-GGUUC----ACGUUUGGGA------------UUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 128681 0.77 0.522052
Target:  5'- uUGCCGGGguUGCcauuACUCUGGUGGGCCu -3'
miRNA:   3'- cGCGGUUC--ACGuu--UGGGAUUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 126622 0.74 0.668907
Target:  5'- uCGCCAaccguAGUGUguACCCcccAUGGGCCa -3'
miRNA:   3'- cGCGGU-----UCACGuuUGGGau-UACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 112771 0.73 0.729247
Target:  5'- cCGCCGAGcGCAAcgcGCCCgcuuggcaaGGGCCg -3'
miRNA:   3'- cGCGGUUCaCGUU---UGGGauua-----CCCGG- -5'
13344 3' -52.3 NC_003409.1 + 70968 0.73 0.731285
Target:  5'- aCGCCAGGUuCu--CCUUGGUGGGUCa -3'
miRNA:   3'- cGCGGUUCAcGuuuGGGAUUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 40554 0.71 0.817939
Target:  5'- gGCGCC-AGUGCAGGCCUaguuugcgAAUGGcGUg -3'
miRNA:   3'- -CGCGGuUCACGUUUGGGa-------UUACC-CGg -5'
13344 3' -52.3 NC_003409.1 + 51961 0.71 0.835447
Target:  5'- cGCGCCAGccucUGCAGuUCCUccaaagGGUGGGCUa -3'
miRNA:   3'- -CGCGGUUc---ACGUUuGGGA------UUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 133041 0.7 0.843908
Target:  5'- aGCGCCugcAGGUGCcucACCaccg-GGGCCg -3'
miRNA:   3'- -CGCGG---UUCACGuu-UGGgauuaCCCGG- -5'
13344 3' -52.3 NC_003409.1 + 107780 0.7 0.859407
Target:  5'- cGCGCCcAGUccggcgauuugcaGCAGGCCacGGUGGGCa -3'
miRNA:   3'- -CGCGGuUCA-------------CGUUUGGgaUUACCCGg -5'
13344 3' -52.3 NC_003409.1 + 109903 0.7 0.860201
Target:  5'- uUGCCAccgGCGAGCgCCUGGUcGGCCa -3'
miRNA:   3'- cGCGGUucaCGUUUG-GGAUUAcCCGG- -5'
13344 3' -52.3 NC_003409.1 + 85235 0.7 0.860201
Target:  5'- -gGCUAGGUgGCuGACauaUUAGUGGGCCu -3'
miRNA:   3'- cgCGGUUCA-CGuUUGg--GAUUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 124256 0.69 0.882968
Target:  5'- uCGUCuGGUGUAuuaucUCCUGGUGGGCUa -3'
miRNA:   3'- cGCGGuUCACGUuu---GGGAUUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 128243 0.69 0.882968
Target:  5'- gGCG-CAGGUGagggcagcaGAGCCCcgcAUGGGCCc -3'
miRNA:   3'- -CGCgGUUCACg--------UUUGGGau-UACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 60849 0.69 0.896285
Target:  5'- uGUGCCAcGUuccgguggacgccGCGGGCCCgguUAGUGGGaCCu -3'
miRNA:   3'- -CGCGGUuCA-------------CGUUUGGG---AUUACCC-GG- -5'
13344 3' -52.3 NC_003409.1 + 94428 0.69 0.916086
Target:  5'- aGUGCCuGGGUGCuguCCCggguuAUGGGUg -3'
miRNA:   3'- -CGCGG-UUCACGuuuGGGau---UACCCGg -5'
13344 3' -52.3 NC_003409.1 + 108307 0.69 0.916086
Target:  5'- uGCGCUggGUuuccucgcGCGAugCUUuucucUGGGCCu -3'
miRNA:   3'- -CGCGGuuCA--------CGUUugGGAuu---ACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 55891 0.69 0.916086
Target:  5'- cGCGCUucAGUGCAccgugGGCCCUGAc-GGCa -3'
miRNA:   3'- -CGCGGu-UCACGU-----UUGGGAUUacCCGg -5'
13344 3' -52.3 NC_003409.1 + 91715 0.68 0.927564
Target:  5'- -gGCCAcuccCAAGCCCacAUGGGCCu -3'
miRNA:   3'- cgCGGUucacGUUUGGGauUACCCGG- -5'
13344 3' -52.3 NC_003409.1 + 77964 0.68 0.927564
Target:  5'- cGCGUgAAGUGUAuuCC--GGUGGGCa -3'
miRNA:   3'- -CGCGgUUCACGUuuGGgaUUACCCGg -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.