miRNA display CGI


Results 1 - 20 of 31 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
17072 3' -60.1 NC_004333.2 + 858 0.71 0.237653
Target:  5'- cUGGGCCauaGGCACCGAGAcgacGCCgUUGGCGa -3'
miRNA:   3'- cGCCCGG---CUGUGGCUCU----UGG-GGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 1997 0.74 0.145404
Target:  5'- aGCGuuacGCCGGCGCgGAuGAugCCCGACGu -3'
miRNA:   3'- -CGCc---CGGCUGUGgCU-CUugGGGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 3196 0.67 0.430683
Target:  5'- aCGaGGCCGgugagccggcccggcGCGCCGcccGCCCCGAUGa -3'
miRNA:   3'- cGC-CCGGC---------------UGUGGCucuUGGGGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 4223 0.66 0.455043
Target:  5'- uGCGcGuuGACGCuCGAGAACaUCGGCGu -3'
miRNA:   3'- -CGCcCggCUGUG-GCUCUUGgGGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 8098 0.72 0.217035
Target:  5'- aCGGGUCGACGuaggucgucagguagUuCGGGAugCCCGACGa -3'
miRNA:   3'- cGCCCGGCUGU---------------G-GCUCUugGGGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 8857 0.69 0.332822
Target:  5'- aGCGcGCCGcCGCCGAGcgaaucggcugccAGCCCCGGg- -3'
miRNA:   3'- -CGCcCGGCuGUGGCUC-------------UUGGGGCUgc -5'
17072 3' -60.1 NC_004333.2 + 8967 0.66 0.442768
Target:  5'- cGCGGGCUGG-AUCGuGGGCCgugcgcggcggcgaCCGACGc -3'
miRNA:   3'- -CGCCCGGCUgUGGCuCUUGG--------------GGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 11229 0.66 0.455043
Target:  5'- cGCGGcuccuuGCCGGCGCuCGAGugcuGCCa-GACGg -3'
miRNA:   3'- -CGCC------CGGCUGUG-GCUCu---UGGggCUGC- -5'
17072 3' -60.1 NC_004333.2 + 15006 0.69 0.296374
Target:  5'- aGCGGGCCgccGACGCCGAc-GCCgCGAa- -3'
miRNA:   3'- -CGCCCGG---CUGUGGCUcuUGGgGCUgc -5'
17072 3' -60.1 NC_004333.2 + 15783 1.09 0.000344
Target:  5'- cGCGGGCCGACACCGAGAACCCCGACGc -3'
miRNA:   3'- -CGCCCGGCUGUGGCUCUUGGGGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 16952 0.67 0.391261
Target:  5'- cGCGcGGCCGucGCGCCGGcauGACCaaCCGGCa -3'
miRNA:   3'- -CGC-CCGGC--UGUGGCUc--UUGG--GGCUGc -5'
17072 3' -60.1 NC_004333.2 + 17089 0.68 0.382635
Target:  5'- aCGGGCCaGGCGCCGA--ACCUgcaGGCGc -3'
miRNA:   3'- cGCCCGG-CUGUGGCUcuUGGGg--CUGC- -5'
17072 3' -60.1 NC_004333.2 + 17167 0.67 0.400013
Target:  5'- uGCGcGUCGACaagGCCGcugcGAGCCCCGAUc -3'
miRNA:   3'- -CGCcCGGCUG---UGGCu---CUUGGGGCUGc -5'
17072 3' -60.1 NC_004333.2 + 17780 0.69 0.318309
Target:  5'- uCGGuCCGGCGCCGGucGCUUCGACGu -3'
miRNA:   3'- cGCCcGGCUGUGGCUcuUGGGGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 23931 0.67 0.417886
Target:  5'- aCGGGCgGcACACCGuGGAAgCCUGGgGg -3'
miRNA:   3'- cGCCCGgC-UGUGGC-UCUUgGGGCUgC- -5'
17072 3' -60.1 NC_004333.2 + 24711 0.69 0.303553
Target:  5'- aGCGcGGCCGACaacaauGCgGucAACCCCGAUa -3'
miRNA:   3'- -CGC-CCGGCUG------UGgCucUUGGGGCUGc -5'
17072 3' -60.1 NC_004333.2 + 25305 0.82 0.038746
Target:  5'- cCGGGCCGACGCCGGcGAcuGCCgCGACGu -3'
miRNA:   3'- cGCCCGGCUGUGGCU-CU--UGGgGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 25429 0.66 0.47428
Target:  5'- gGCGgcGGCCGucACGCCGGGcguGCCgguuaCGACGa -3'
miRNA:   3'- -CGC--CCGGC--UGUGGCUCu--UGGg----GCUGC- -5'
17072 3' -60.1 NC_004333.2 + 29102 0.67 0.417886
Target:  5'- aCGGGCCG-CGCCGAGugg--CGACGu -3'
miRNA:   3'- cGCCCGGCuGUGGCUCuugggGCUGC- -5'
17072 3' -60.1 NC_004333.2 + 29752 0.66 0.493915
Target:  5'- cGCGGuGUCGACGCCGccGAUCgCGAgGc -3'
miRNA:   3'- -CGCC-CGGCUGUGGCucUUGGgGCUgC- -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.