miRNA display CGI


Results 1 - 20 of 60 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
11904 3' -57.9 NC_003266.2 + 15739 0.67 0.373277
Target:  5'- gUAGCaCCACCGCCAUgcgUGCGGCGcgagccuugcugcGCAGg -3'
miRNA:   3'- aGUCG-GGUGGCGGUG---GUGUUGU-------------CGUC- -5'
11904 3' -57.9 NC_003266.2 + 13885 0.69 0.294793
Target:  5'- gCAGCCC-CCGCUggaggcuccuuacguGCCACcGCGGUAc -3'
miRNA:   3'- aGUCGGGuGGCGG---------------UGGUGuUGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 16913 0.68 0.299348
Target:  5'- cCGGCUC-CCGCCGCCGCAAgAcCAc -3'
miRNA:   3'- aGUCGGGuGGCGGUGGUGUUgUcGUc -5'
11904 3' -57.9 NC_003266.2 + 16937 0.68 0.322935
Target:  5'- cCA-CCCGCCGCCgucgucGCCGC-ACAGCuGa -3'
miRNA:   3'- aGUcGGGUGGCGG------UGGUGuUGUCGuC- -5'
11904 3' -57.9 NC_003266.2 + 20957 0.68 0.3311
Target:  5'- cCAGUgCACCaGCC-CCACcGCGGCGu -3'
miRNA:   3'- aGUCGgGUGG-CGGuGGUGuUGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 16078 0.67 0.347028
Target:  5'- aUCGcGCCUgagaucuACgGCC-CCGCGGCGGCGGu -3'
miRNA:   3'- -AGU-CGGG-------UGgCGGuGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 25594 0.67 0.356498
Target:  5'- gUAG-CCGCCGCCGCCAgAccgucguccuCGGCGGa -3'
miRNA:   3'- aGUCgGGUGGCGGUGGUgUu---------GUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 31223 0.67 0.356498
Target:  5'- gUCAacCCCAUCGUCAUCACc-CAGCAGu -3'
miRNA:   3'- -AGUc-GGGUGGCGGUGGUGuuGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 13573 0.67 0.365262
Target:  5'- --cGCCCguaaacGCCGCUGgCACGACAGgCAGc -3'
miRNA:   3'- aguCGGG------UGGCGGUgGUGUUGUC-GUC- -5'
11904 3' -57.9 NC_003266.2 + 13287 0.7 0.249548
Target:  5'- cCGGCCgCACgggUGCUGCCGCAGCGGUg- -3'
miRNA:   3'- aGUCGG-GUG---GCGGUGGUGUUGUCGuc -5'
11904 3' -57.9 NC_003266.2 + 24551 0.7 0.236634
Target:  5'- -aGGCCCGCCGCgACUACAuCcGCGa -3'
miRNA:   3'- agUCGGGUGGCGgUGGUGUuGuCGUc -5'
11904 3' -57.9 NC_003266.2 + 10831 0.7 0.23039
Target:  5'- uUCuGCCU-CCGCC-CCAgCAGCAGCAa -3'
miRNA:   3'- -AGuCGGGuGGCGGuGGU-GUUGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 10772 0.78 0.063655
Target:  5'- gCAGaugcgccCCCACCcuCCACCGCAACAGCAGc -3'
miRNA:   3'- aGUC-------GGGUGGc-GGUGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 23350 0.76 0.090887
Target:  5'- aUCuGCCCccACCGCCgACaagaaGCAGCAGCAGa -3'
miRNA:   3'- -AGuCGGG--UGGCGG-UGg----UGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 11836 0.75 0.10211
Target:  5'- gCAGCCCAgCCGCCgggucuuggaaGCCGCGGCGGUc- -3'
miRNA:   3'- aGUCGGGU-GGCGG-----------UGGUGUUGUCGuc -5'
11904 3' -57.9 NC_003266.2 + 30794 0.75 0.103302
Target:  5'- -uGGCUC-CCGCCugaucccgacacaccACCACAGCAGCAGc -3'
miRNA:   3'- agUCGGGuGGCGG---------------UGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 11165 0.72 0.165826
Target:  5'- aUCAGCCCugCGCgCGCgCACGugGccGCGGc -3'
miRNA:   3'- -AGUCGGGugGCG-GUG-GUGUugU--CGUC- -5'
11904 3' -57.9 NC_003266.2 + 10860 0.72 0.170518
Target:  5'- cCAGCcacuaCCGCCGCgGCCGcCGugAGCGGg -3'
miRNA:   3'- aGUCG-----GGUGGCGgUGGU-GUugUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 15856 0.71 0.201228
Target:  5'- cUCGGagaCgCGCgGCCACgGCGGCGGCAGc -3'
miRNA:   3'- -AGUCg--G-GUGgCGGUGgUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 18940 0.7 0.229158
Target:  5'- uUCAGaaCCCGCCGCCACCACucuaacuaugauauaGaccuggcuuucuuugACAGCAa -3'
miRNA:   3'- -AGUC--GGGUGGCGGUGGUG---------------U---------------UGUCGUc -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.