miRNA display CGI


Results 1 - 20 of 32 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
12842 3' -56.4 NC_003387.1 + 50407 0.66 0.656977
Target:  5'- gAGCuGUaCGU-CGGGcGGCAGAUCGu -3'
miRNA:   3'- -UCGuCGcGCAuGUCCaCCGUCUAGCc -5'
12842 3' -56.4 NC_003387.1 + 12915 0.66 0.64602
Target:  5'- uGGgGGUGCcUAguGGUGGCucGUCGGc -3'
miRNA:   3'- -UCgUCGCGcAUguCCACCGucUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 24974 0.66 0.64602
Target:  5'- uGGCAGCucgGCaUGCAGGggGaGCAGGUCa- -3'
miRNA:   3'- -UCGUCG---CGcAUGUCCa-C-CGUCUAGcc -5'
12842 3' -56.4 NC_003387.1 + 37333 0.66 0.64602
Target:  5'- cGguGCGgGUACGGGUcgaucgugauGuGCAGAUCc- -3'
miRNA:   3'- uCguCGCgCAUGUCCA----------C-CGUCUAGcc -5'
12842 3' -56.4 NC_003387.1 + 21214 0.66 0.64602
Target:  5'- cGUGGaacaGCGUGCGGGcgcagGGCGauccGGUCGGc -3'
miRNA:   3'- uCGUCg---CGCAUGUCCa----CCGU----CUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 10463 0.66 0.64602
Target:  5'- uGCGGCGUGUuccCAGGUGuCGGGuuUCGa -3'
miRNA:   3'- uCGUCGCGCAu--GUCCACcGUCU--AGCc -5'
12842 3' -56.4 NC_003387.1 + 8282 0.66 0.64602
Target:  5'- cGCAGCGCcucGUGCGcgucGGcgGGCAGcAUCGc -3'
miRNA:   3'- uCGUCGCG---CAUGU----CCa-CCGUC-UAGCc -5'
12842 3' -56.4 NC_003387.1 + 15115 0.67 0.602167
Target:  5'- cGGCAGUGCgGUGCGGGUGcacCAuGAUCc- -3'
miRNA:   3'- -UCGUCGCG-CAUGUCCACc--GU-CUAGcc -5'
12842 3' -56.4 NC_003387.1 + 13149 0.67 0.602167
Target:  5'- cGCAGCGCGaACAGGccGUcgAGGUCaGGc -3'
miRNA:   3'- uCGUCGCGCaUGUCCacCG--UCUAG-CC- -5'
12842 3' -56.4 NC_003387.1 + 41784 0.67 0.56951
Target:  5'- aAGCcgGGCGCGUGCcgcgaccuGGcgcacgccUGGCAGAUCa- -3'
miRNA:   3'- -UCG--UCGCGCAUGu-------CC--------ACCGUCUAGcc -5'
12842 3' -56.4 NC_003387.1 + 29081 0.67 0.558715
Target:  5'- cGCGGCGCuGUGCAGGUu-CAucUCGGa -3'
miRNA:   3'- uCGUCGCG-CAUGUCCAccGUcuAGCC- -5'
12842 3' -56.4 NC_003387.1 + 12023 0.67 0.558715
Target:  5'- -aCGGCGCaUGCGGuGUGGCAGGgcaUCGu -3'
miRNA:   3'- ucGUCGCGcAUGUC-CACCGUCU---AGCc -5'
12842 3' -56.4 NC_003387.1 + 24820 0.67 0.547978
Target:  5'- cAGCAGCucgGCGUACucGGGcGGCuGGcCGGg -3'
miRNA:   3'- -UCGUCG---CGCAUG--UCCaCCGuCUaGCC- -5'
12842 3' -56.4 NC_003387.1 + 10988 0.68 0.526708
Target:  5'- cGGCGGCGCcgcaaaggGUAUGGGcGGCAGuuucGUUGGc -3'
miRNA:   3'- -UCGUCGCG--------CAUGUCCaCCGUC----UAGCC- -5'
12842 3' -56.4 NC_003387.1 + 24849 0.68 0.525653
Target:  5'- uGCGGcCGgGUGCGuGGUGGCuGGcucgaccUCGGg -3'
miRNA:   3'- uCGUC-GCgCAUGU-CCACCGuCU-------AGCC- -5'
12842 3' -56.4 NC_003387.1 + 1184 0.68 0.516189
Target:  5'- uAGCGGCGgGcGCAGG-GGCAaGggUGGc -3'
miRNA:   3'- -UCGUCGCgCaUGUCCaCCGU-CuaGCC- -5'
12842 3' -56.4 NC_003387.1 + 21607 0.68 0.505756
Target:  5'- cGCGGCGC-UGCuGGU-GCAcauGAUCGGg -3'
miRNA:   3'- uCGUCGCGcAUGuCCAcCGU---CUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 22157 0.68 0.495414
Target:  5'- cGGCacGGCGCGUACcGGccgcGGCGGcgguccauGUCGGg -3'
miRNA:   3'- -UCG--UCGCGCAUGuCCa---CCGUC--------UAGCC- -5'
12842 3' -56.4 NC_003387.1 + 22158 0.69 0.463993
Target:  5'- cGGCGGCacgcucaGCGgcccagGCGGGggcGGCGGuAUCGGg -3'
miRNA:   3'- -UCGUCG-------CGCa-----UGUCCa--CCGUC-UAGCC- -5'
12842 3' -56.4 NC_003387.1 + 45161 0.69 0.445258
Target:  5'- aGGUGGuCGCGUgaGCAGGcaccGGCaagaGGAUCGGg -3'
miRNA:   3'- -UCGUC-GCGCA--UGUCCa---CCG----UCUAGCC- -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.