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 + 16537 1.11 0.000517
Target:  5'- cAGCAGCGCGUACAGGUGGCAGAUCGGg -3'
miRNA:   3'- -UCGUCGCGCAUGUCCACCGUCUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 39698 0.91 0.014063
Target:  5'- cGCAGCGCGUGCAGcagcGGCAGAUCGGg -3'
miRNA:   3'- uCGUCGCGCAUGUCca--CCGUCUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 9725 0.81 0.079001
Target:  5'- -uCAGCGCGUACGGGUcGGCgucaAGGUCGGc -3'
miRNA:   3'- ucGUCGCGCAUGUCCA-CCG----UCUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 44489 0.8 0.091111
Target:  5'- cAGCAGCGCGUGCA----GCAGAUCGGc -3'
miRNA:   3'- -UCGUCGCGCAUGUccacCGUCUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 44606 0.78 0.120789
Target:  5'- cAGCAGCGCGUACGagcuGGgcucgcccucgGGCGGGUUGGc -3'
miRNA:   3'- -UCGUCGCGCAUGU----CCa----------CCGUCUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 45238 0.77 0.150767
Target:  5'- -cCAGCGgGUGCGGGUGcGCGGcUCGGu -3'
miRNA:   3'- ucGUCGCgCAUGUCCAC-CGUCuAGCC- -5'
12842 3' -56.4 NC_003387.1 + 27922 0.72 0.291398
Target:  5'- cGGCGGCGUGggcgccuCGGGgggGGCucGGUCGGg -3'
miRNA:   3'- -UCGUCGCGCau-----GUCCa--CCGu-CUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 37816 0.71 0.345863
Target:  5'- cAGCAGCGCGcgauCGGGccGaGCgAGGUCGGg -3'
miRNA:   3'- -UCGUCGCGCau--GUCCa-C-CG-UCUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 2955 0.71 0.371341
Target:  5'- cGCAGCGCGUgaucaGCGGGUggaccGGCAGcaaGGc -3'
miRNA:   3'- uCGUCGCGCA-----UGUCCA-----CCGUCuagCC- -5'
12842 3' -56.4 NC_003387.1 + 13897 0.71 0.371341
Target:  5'- gGGCAGguuCGaCGU-CGGGUGGCGcccGAUCGGc -3'
miRNA:   3'- -UCGUC---GC-GCAuGUCCACCGU---CUAGCC- -5'
12842 3' -56.4 NC_003387.1 + 48914 0.7 0.377468
Target:  5'- gAGCuGCGCGUuggcacuuuugccgGCGGGUugcuGGCGGG-CGGg -3'
miRNA:   3'- -UCGuCGCGCA--------------UGUCCA----CCGUCUaGCC- -5'
12842 3' -56.4 NC_003387.1 + 18555 0.7 0.39807
Target:  5'- cGCAgGCGUGUgcccACAGGU-GCGGGUCGa -3'
miRNA:   3'- uCGU-CGCGCA----UGUCCAcCGUCUAGCc -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'
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 + 22157 0.68 0.495414
Target:  5'- cGGCacGGCGCGUACcGGccgcGGCGGcgguccauGUCGGg -3'
miRNA:   3'- -UCG--UCGCGCAUGuCCa---CCGUC--------UAGCC- -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 + 1184 0.68 0.516189
Target:  5'- uAGCGGCGgGcGCAGG-GGCAaGggUGGc -3'
miRNA:   3'- -UCGUCGCgCaUGUCCaCCGU-CuaGCC- -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 + 10988 0.68 0.526708
Target:  5'- cGGCGGCGCcgcaaaggGUAUGGGcGGCAGuuucGUUGGc -3'
miRNA:   3'- -UCGUCGCG--------CAUGUCCaCCGUC----UAGCC- -5'
12842 3' -56.4 NC_003387.1 + 24820 0.67 0.547978
Target:  5'- cAGCAGCucgGCGUACucGGGcGGCuGGcCGGg -3'
miRNA:   3'- -UCGUCG---CGCAUG--UCCaCCGuCUaGCC- -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.