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
12980 5' -63.2 NC_003387.1 + 107 0.72 0.132591
Target:  5'- cCGAGCUGAUgCgCGC-CCGCCUCGAu- -3'
miRNA:   3'- -GCUCGACUGgG-GCGuGGCGGGGCUcc -5'
12980 5' -63.2 NC_003387.1 + 1401 0.67 0.281938
Target:  5'- cCGAGCUa--CCCGCACCGgacgucggCCCGAGc -3'
miRNA:   3'- -GCUCGAcugGGGCGUGGCg-------GGGCUCc -5'
12980 5' -63.2 NC_003387.1 + 1968 0.66 0.363339
Target:  5'- cCGGGCagcgccagcuUGACCUgaaaCGCACgGCgUCGAGGu -3'
miRNA:   3'- -GCUCG----------ACUGGG----GCGUGgCGgGGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 2010 0.7 0.197089
Target:  5'- uGAcGCUGGCCCUGCucggugccgccgacgGCCGCCgucgCCGAGc -3'
miRNA:   3'- gCU-CGACUGGGGCG---------------UGGCGG----GGCUCc -5'
12980 5' -63.2 NC_003387.1 + 3520 0.69 0.232309
Target:  5'- cCGGcGCcagUGcCCCCGcCGCCGCCCC-AGGc -3'
miRNA:   3'- -GCU-CG---ACuGGGGC-GUGGCGGGGcUCC- -5'
12980 5' -63.2 NC_003387.1 + 4463 0.68 0.275301
Target:  5'- cCGAGCcGACCgCCGagcCCGCCgCGAaGGc -3'
miRNA:   3'- -GCUCGaCUGG-GGCgu-GGCGGgGCU-CC- -5'
12980 5' -63.2 NC_003387.1 + 5121 0.73 0.116227
Target:  5'- gCGAGCUGAUCgCCGCA-CGCgaCGAGGg -3'
miRNA:   3'- -GCUCGACUGG-GGCGUgGCGggGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 6956 0.71 0.163228
Target:  5'- aGGGC--ACCCUGCugGCCGCCCucguCGAGGg -3'
miRNA:   3'- gCUCGacUGGGGCG--UGGCGGG----GCUCC- -5'
12980 5' -63.2 NC_003387.1 + 8061 0.71 0.171388
Target:  5'- aCGAGCUGGCggCCCGCGCUaacccgcugccgGUcggcgccaacccgCCCGAGGg -3'
miRNA:   3'- -GCUCGACUG--GGGCGUGG------------CG-------------GGGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 9536 0.7 0.185483
Target:  5'- -aAGCgGugCCUGCgcaaGCCGCCgCCGGGGu -3'
miRNA:   3'- gcUCGaCugGGGCG----UGGCGG-GGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 11404 0.7 0.195112
Target:  5'- --cGCUGGCCgCG-AUCgGCCCCGAGGu -3'
miRNA:   3'- gcuCGACUGGgGCgUGG-CGGGGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 11438 0.69 0.220561
Target:  5'- gGuGCUcGugCCCGCGCugcagcuCGCCgCCGGGGc -3'
miRNA:   3'- gCuCGA-CugGGGCGUG-------GCGG-GGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 12156 0.66 0.347394
Target:  5'- cCGAGCUucugcagcGCCUCGaa-CGCCUCGGGGg -3'
miRNA:   3'- -GCUCGAc-------UGGGGCgugGCGGGGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 15814 0.67 0.317026
Target:  5'- uGGGCUGACg-CGCACagCGUCaCCGAGGc -3'
miRNA:   3'- gCUCGACUGggGCGUG--GCGG-GGCUCC- -5'
12980 5' -63.2 NC_003387.1 + 16140 0.66 0.355304
Target:  5'- -aAGCUG-CUggGCACCGCCCCGucGa -3'
miRNA:   3'- gcUCGACuGGggCGUGGCGGGGCucC- -5'
12980 5' -63.2 NC_003387.1 + 16986 0.68 0.250001
Target:  5'- gCGGGCgGGCUgCGuCAUCGaCCCCGAGcGg -3'
miRNA:   3'- -GCUCGaCUGGgGC-GUGGC-GGGGCUC-C- -5'
12980 5' -63.2 NC_003387.1 + 17084 0.67 0.302608
Target:  5'- -cGGCcaGugCCCGCccgGCCGCCUCGGcGGg -3'
miRNA:   3'- gcUCGa-CugGGGCG---UGGCGGGGCU-CC- -5'
12980 5' -63.2 NC_003387.1 + 19855 0.66 0.342708
Target:  5'- uCGAGCUGGCagucggcgcagucggCgacgcggaaCCGCcCCGCCCCGcGGu -3'
miRNA:   3'- -GCUCGACUG---------------G---------GGCGuGGCGGGGCuCC- -5'
12980 5' -63.2 NC_003387.1 + 21573 0.67 0.295591
Target:  5'- cCGAGCUGAUCCUGCACga-CUCGAu- -3'
miRNA:   3'- -GCUCGACUGGGGCGUGgcgGGGCUcc -5'
12980 5' -63.2 NC_003387.1 + 22456 0.74 0.104513
Target:  5'- aCGAGUggcugcccGACCCCgGCGCCGaCCCCGAc- -3'
miRNA:   3'- -GCUCGa-------CUGGGG-CGUGGC-GGGGCUcc -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.