miRNA display CGI


Results 1 - 20 of 37 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
7354 3' -56.4 NC_001900.1 + 39939 1.1 0.000559
Target:  5'- aGCGCGAACGAACCUGAGCCCGGACACc -3'
miRNA:   3'- -CGCGCUUGCUUGGACUCGGGCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 41988 0.75 0.195086
Target:  5'- uCGCGAugGAGCgUGAGgaccauCUCGGGCACa -3'
miRNA:   3'- cGCGCUugCUUGgACUC------GGGCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 1053 0.72 0.287793
Target:  5'- gGCGCGAugGAAUgaucgCUGAGCUauggucuggCGGAUACc -3'
miRNA:   3'- -CGCGCUugCUUG-----GACUCGG---------GCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 39441 0.72 0.287793
Target:  5'- gGUGCGuGGCGcACCgUGGGCCgGGAUACu -3'
miRNA:   3'- -CGCGC-UUGCuUGG-ACUCGGgCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 12586 0.71 0.333594
Target:  5'- cCGUGAACG-GCCUGAGCCUgcuGGugAa -3'
miRNA:   3'- cGCGCUUGCuUGGACUCGGG---CCugUg -5'
7354 3' -56.4 NC_001900.1 + 32644 0.7 0.381849
Target:  5'- cGCgGCGAACGAACCUGGcuucggcguuGUCUucucaaagucgucgGGACGCg -3'
miRNA:   3'- -CG-CGCUUGCUUGGACU----------CGGG--------------CCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 25826 0.7 0.384514
Target:  5'- uGUGCGuccaGGCGAGCCUGcAGCUCGG-CGa -3'
miRNA:   3'- -CGCGC----UUGCUUGGAC-UCGGGCCuGUg -5'
7354 3' -56.4 NC_001900.1 + 34143 0.7 0.393487
Target:  5'- uGUGCGGAcgcCGAGCCUGAucagGCCCuGGAUuCg -3'
miRNA:   3'- -CGCGCUU---GCUUGGACU----CGGG-CCUGuG- -5'
7354 3' -56.4 NC_001900.1 + 26702 0.7 0.402595
Target:  5'- cGCGaccuuaGAGCGAcacuaaugACCUGcauuuaugcuGCCCGGAUACa -3'
miRNA:   3'- -CGCg-----CUUGCU--------UGGACu---------CGGGCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 10494 0.7 0.402595
Target:  5'- cCGCGAugG-GCCUcGGCCUgcuGGGCACg -3'
miRNA:   3'- cGCGCUugCuUGGAcUCGGG---CCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 47530 0.7 0.410905
Target:  5'- cGUGCGGugGAccACCUGcGCCUggcucaggaucuuGGACAUg -3'
miRNA:   3'- -CGCGCUugCU--UGGACuCGGG-------------CCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 19892 0.7 0.411835
Target:  5'- gGCGCGGAUGAACg-GuGUCCGGuucCGCa -3'
miRNA:   3'- -CGCGCUUGCUUGgaCuCGGGCCu--GUG- -5'
7354 3' -56.4 NC_001900.1 + 43812 0.69 0.440325
Target:  5'- aGCGCGAGCGAACCgGAacGCCgcuucuggcguCGGGaACg -3'
miRNA:   3'- -CGCGCUUGCUUGGaCU--CGG-----------GCCUgUG- -5'
7354 3' -56.4 NC_001900.1 + 28128 0.69 0.450069
Target:  5'- cGCcCGGACGAACCcggUGAGCCaGGAgcCGCc -3'
miRNA:   3'- -CGcGCUUGCUUGG---ACUCGGgCCU--GUG- -5'
7354 3' -56.4 NC_001900.1 + 7918 0.69 0.450069
Target:  5'- -gGCGAuCGAcCCggaGAGCCCGGAUcCg -3'
miRNA:   3'- cgCGCUuGCUuGGa--CUCGGGCCUGuG- -5'
7354 3' -56.4 NC_001900.1 + 12865 0.69 0.45993
Target:  5'- aCGUGAcggaucagGCGAcCCUGAaCCUGGGCACc -3'
miRNA:   3'- cGCGCU--------UGCUuGGACUcGGGCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 10769 0.69 0.469904
Target:  5'- aUGCGGaagcuGCcGACCUGGGCCgGGACu- -3'
miRNA:   3'- cGCGCU-----UGcUUGGACUCGGgCCUGug -5'
7354 3' -56.4 NC_001900.1 + 34900 0.68 0.479987
Target:  5'- -aGCuuGCGAcCCgccGCCCGGACGCg -3'
miRNA:   3'- cgCGcuUGCUuGGacuCGGGCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 44743 0.68 0.490175
Target:  5'- --cCGAGCGAGCUUGuacGCCauCGGGCACu -3'
miRNA:   3'- cgcGCUUGCUUGGACu--CGG--GCCUGUG- -5'
7354 3' -56.4 NC_001900.1 + 23233 0.68 0.500463
Target:  5'- gGCGUGGACcAGCCUGcGGUUCGGugAg -3'
miRNA:   3'- -CGCGCUUGcUUGGAC-UCGGGCCugUg -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.