miRNA display CGI


Results 1 - 20 of 80 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
12365 3' -57 NC_003324.1 + 471 0.69 0.42387
Target:  5'- aGGCAUGGCuUgGCGGUGGUUagCCGCGCc -3'
miRNA:   3'- -CCGUGUCG-GgUGUCGUCGAa-GGUGCG- -5'
12365 3' -57 NC_003324.1 + 1670 0.69 0.433372
Target:  5'- uGCugAcGCUgACGGCGGUUcgUCCugGCa -3'
miRNA:   3'- cCGugU-CGGgUGUCGUCGA--AGGugCG- -5'
12365 3' -57 NC_003324.1 + 2275 0.67 0.577298
Target:  5'- aGGUuuuuccuCGGCCCcgugAGCAGCUcCUGCGCu -3'
miRNA:   3'- -CCGu------GUCGGGug--UCGUCGAaGGUGCG- -5'
12365 3' -57 NC_003324.1 + 2382 0.69 0.45667
Target:  5'- aGGCAUAuucaggaagcagcccGCCCGCAGgGGCgggUCGCGg -3'
miRNA:   3'- -CCGUGU---------------CGGGUGUCgUCGaa-GGUGCg -5'
12365 3' -57 NC_003324.1 + 2700 0.68 0.4626
Target:  5'- gGGCACGauGUCgGCGGCGGCagucUCCAaGCg -3'
miRNA:   3'- -CCGUGU--CGGgUGUCGUCGa---AGGUgCG- -5'
12365 3' -57 NC_003324.1 + 2742 0.68 0.513481
Target:  5'- cGCGC-GCCCACAGUGGCgcaaucUCC-CGa -3'
miRNA:   3'- cCGUGuCGGGUGUCGUCGa-----AGGuGCg -5'
12365 3' -57 NC_003324.1 + 4809 0.67 0.538713
Target:  5'- uGCACAGCCaugaAGCAGCgaUCCguuucagugacuaugGCGCc -3'
miRNA:   3'- cCGUGUCGGgug-UCGUCGa-AGG---------------UGCG- -5'
12365 3' -57 NC_003324.1 + 4909 0.73 0.243014
Target:  5'- cGCuuuCGGCuCCGCAgGCGGCUUCCGCu- -3'
miRNA:   3'- cCGu--GUCG-GGUGU-CGUCGAAGGUGcg -5'
12365 3' -57 NC_003324.1 + 6127 0.67 0.555767
Target:  5'- cGCGCcuacGCCgAUAGCGGaCUgacCCGCGCc -3'
miRNA:   3'- cCGUGu---CGGgUGUCGUC-GAa--GGUGCG- -5'
12365 3' -57 NC_003324.1 + 6522 0.68 0.50311
Target:  5'- cGCugAG-CCACGGCAGggUCUGCGa -3'
miRNA:   3'- cCGugUCgGGUGUCGUCgaAGGUGCg -5'
12365 3' -57 NC_003324.1 + 7520 0.68 0.4626
Target:  5'- aGCACAGCaCUcggGCAGCAGCacCCuuGCc -3'
miRNA:   3'- cCGUGUCG-GG---UGUCGUCGaaGGugCG- -5'
12365 3' -57 NC_003324.1 + 8176 0.65 0.640499
Target:  5'- gGGC-CAGUCCcugcucacugccCGGCGGCgcgcgCCugGCa -3'
miRNA:   3'- -CCGuGUCGGGu-----------GUCGUCGaa---GGugCG- -5'
12365 3' -57 NC_003324.1 + 8662 0.69 0.442996
Target:  5'- -aCGCGGUCCuCGGCAGUgagCCAgCGCg -3'
miRNA:   3'- ccGUGUCGGGuGUCGUCGaa-GGU-GCG- -5'
12365 3' -57 NC_003324.1 + 9101 0.67 0.523939
Target:  5'- cGGCAaacGCCUuuGCGGUGGUUccuugcugUCCACGCc -3'
miRNA:   3'- -CCGUgu-CGGG--UGUCGUCGA--------AGGUGCG- -5'
12365 3' -57 NC_003324.1 + 9502 0.72 0.26915
Target:  5'- uGGCACGGCCgGCGGCAcCaa-CAUGCa -3'
miRNA:   3'- -CCGUGUCGGgUGUCGUcGaagGUGCG- -5'
12365 3' -57 NC_003324.1 + 11171 0.67 0.555767
Target:  5'- cGCACAGCgUugAGguGCggaugaCCACGa -3'
miRNA:   3'- cCGUGUCGgGugUCguCGaa----GGUGCg -5'
12365 3' -57 NC_003324.1 + 13161 0.68 0.513481
Target:  5'- cGGCgGCGGUCgGCGGCGGCgguaCCGgcUGCa -3'
miRNA:   3'- -CCG-UGUCGGgUGUCGUCGaa--GGU--GCG- -5'
12365 3' -57 NC_003324.1 + 14002 0.66 0.609907
Target:  5'- cGGCACucGCuCCGCAGCA--UUCCAUa- -3'
miRNA:   3'- -CCGUGu-CG-GGUGUCGUcgAAGGUGcg -5'
12365 3' -57 NC_003324.1 + 14196 0.69 0.442996
Target:  5'- aGGuCACAGa--ACAGCAGCUuggCUugGCg -3'
miRNA:   3'- -CC-GUGUCgggUGUCGUCGAa--GGugCG- -5'
12365 3' -57 NC_003324.1 + 14432 0.67 0.566506
Target:  5'- uGGauacguCGGCCCGCGcuucuGCAGCUgCCuCGCu -3'
miRNA:   3'- -CCgu----GUCGGGUGU-----CGUCGAaGGuGCG- -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.