miRNA display CGI


Results 1 - 20 of 22 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
12380 3' -52.9 NC_003324.1 + 42856 0.66 0.842807
Target:  5'- gCUGGUauUCGAGGCuGCcggccggCCCGCGAGGAUc -3'
miRNA:   3'- aGACCA--GGCUUUG-CG-------GGGUGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 31215 0.66 0.834758
Target:  5'- --aGGcCUGcAGCGCCaggCGCAAGAACa -3'
miRNA:   3'- agaCCaGGCuUUGCGGg--GUGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 39649 0.66 0.829292
Target:  5'- gCUGGUgCUGAcguggcgccaggcggGACGCUCCccguggucgACGAGGACg -3'
miRNA:   3'- aGACCA-GGCU---------------UUGCGGGG---------UGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 55997 0.66 0.825605
Target:  5'- ---cGUCgaGAAGCGCaCCCACAgggcGGAGCg -3'
miRNA:   3'- agacCAGg-CUUUGCG-GGGUGU----UCUUG- -5'
12380 3' -52.9 NC_003324.1 + 21207 0.66 0.825605
Target:  5'- --aGG-CCGAGAUGCUgCGCAAGcGCc -3'
miRNA:   3'- agaCCaGGCUUUGCGGgGUGUUCuUG- -5'
12380 3' -52.9 NC_003324.1 + 22182 0.66 0.816242
Target:  5'- cCUGaUCCGGAgaACGCUCCACGGuGAUg -3'
miRNA:   3'- aGACcAGGCUU--UGCGGGGUGUUcUUG- -5'
12380 3' -52.9 NC_003324.1 + 41515 0.66 0.816242
Target:  5'- --cGGUuuGGGAC-CUCUACGAGGGCu -3'
miRNA:   3'- agaCCAggCUUUGcGGGGUGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 9435 0.67 0.806679
Target:  5'- gUCUGGUagaUCGAGGCGCCgagCugGAGAu- -3'
miRNA:   3'- -AGACCA---GGCUUUGCGGg--GugUUCUug -5'
12380 3' -52.9 NC_003324.1 + 25703 0.67 0.796927
Target:  5'- uUCcGGUCCu---UGCCCCACAAGu-- -3'
miRNA:   3'- -AGaCCAGGcuuuGCGGGGUGUUCuug -5'
12380 3' -52.9 NC_003324.1 + 48197 0.67 0.766651
Target:  5'- gCUGGuucUCCGAGAC-CaCUgACGAGAGCa -3'
miRNA:   3'- aGACC---AGGCUUUGcG-GGgUGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 28838 0.68 0.744674
Target:  5'- gCUGGUCgcggucagagaugCGGAGCGCggCGCGGGAACu -3'
miRNA:   3'- aGACCAG-------------GCUUUGCGggGUGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 22173 0.68 0.72434
Target:  5'- gUCUGGcgcgCCGAGAaccUGCCCaagaaGCAGGAGa -3'
miRNA:   3'- -AGACCa---GGCUUU---GCGGGg----UGUUCUUg -5'
12380 3' -52.9 NC_003324.1 + 4033 0.68 0.713495
Target:  5'- -gUGGUCCGgcGCGCUcuucaucgacaUCACGAGGAa -3'
miRNA:   3'- agACCAGGCuuUGCGG-----------GGUGUUCUUg -5'
12380 3' -52.9 NC_003324.1 + 26056 0.69 0.658266
Target:  5'- aUCUGGUCUGggGCGCCgaagGCAccAACg -3'
miRNA:   3'- -AGACCAGGCuuUGCGGgg--UGUucUUG- -5'
12380 3' -52.9 NC_003324.1 + 17929 0.69 0.6471
Target:  5'- -gUGuUCCGAGACGCCCaccaggcguuCAAGGGCg -3'
miRNA:   3'- agACcAGGCUUUGCGGGgu--------GUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 7639 0.69 0.6471
Target:  5'- cUCUGGUCCGGAggcguGCGCCUUGCu--GGCc -3'
miRNA:   3'- -AGACCAGGCUU-----UGCGGGGUGuucUUG- -5'
12380 3' -52.9 NC_003324.1 + 17617 0.7 0.624735
Target:  5'- cUUUGGuUCCGAu-CGCCgaCGCGGGAACu -3'
miRNA:   3'- -AGACC-AGGCUuuGCGGg-GUGUUCUUG- -5'
12380 3' -52.9 NC_003324.1 + 28593 0.72 0.483218
Target:  5'- gUCUcGGUCCGAAGgGCgCCCGCGuugccaucaAGGAUg -3'
miRNA:   3'- -AGA-CCAGGCUUUgCG-GGGUGU---------UCUUG- -5'
12380 3' -52.9 NC_003324.1 + 16220 0.72 0.477014
Target:  5'- cCUGGcgcggcccccgcuaCCGAAGCGCCCUGCGcAGGACc -3'
miRNA:   3'- aGACCa-------------GGCUUUGCGGGGUGU-UCUUG- -5'
12380 3' -52.9 NC_003324.1 + 7744 0.73 0.423085
Target:  5'- cCUGccuauGUCCGAGagcACGCCUCGCAGGGAg -3'
miRNA:   3'- aGAC-----CAGGCUU---UGCGGGGUGUUCUUg -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.