miRNA display CGI


Results 1 - 20 of 42 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
1571 3' -55.7 NC_001347.2 + 2130 0.67 0.933308
Target:  5'- uGCCUaacGcGGACGCGC-ACGCgGUgGUCg -3'
miRNA:   3'- uCGGA---C-CCUGUGUGuUGUGgCAgCAG- -5'
1571 3' -55.7 NC_001347.2 + 2373 0.67 0.923034
Target:  5'- uGGCgCUGGGACGCGaguCGGCGcCCGcCGcCg -3'
miRNA:   3'- -UCG-GACCCUGUGU---GUUGU-GGCaGCaG- -5'
1571 3' -55.7 NC_001347.2 + 2457 0.68 0.905916
Target:  5'- cGCgCUGGGACGCGCuGCACCu----- -3'
miRNA:   3'- uCG-GACCCUGUGUGuUGUGGcagcag -5'
1571 3' -55.7 NC_001347.2 + 4098 0.67 0.933308
Target:  5'- gGGgCUGGGACguuuuuagucACACAucgGCAUCuUCGUCa -3'
miRNA:   3'- -UCgGACCCUG----------UGUGU---UGUGGcAGCAG- -5'
1571 3' -55.7 NC_001347.2 + 17767 0.68 0.905916
Target:  5'- aAGCCUGGGGCACcuaucucCGACAgCG-CGa- -3'
miRNA:   3'- -UCGGACCCUGUGu------GUUGUgGCaGCag -5'
1571 3' -55.7 NC_001347.2 + 38721 0.66 0.962191
Target:  5'- cGCCUccucGGCGCGCAGCAaCGUCuGUCg -3'
miRNA:   3'- uCGGAcc--CUGUGUGUUGUgGCAG-CAG- -5'
1571 3' -55.7 NC_001347.2 + 39515 0.66 0.958719
Target:  5'- gGGCggGGGGCGCgGCGACauGCCGUUG-Cg -3'
miRNA:   3'- -UCGgaCCCUGUG-UGUUG--UGGCAGCaG- -5'
1571 3' -55.7 NC_001347.2 + 44251 0.69 0.850672
Target:  5'- gGGCUUGGcGACccuucCACGACuGCUGUUGUCa -3'
miRNA:   3'- -UCGGACC-CUGu----GUGUUG-UGGCAGCAG- -5'
1571 3' -55.7 NC_001347.2 + 48259 0.68 0.886113
Target:  5'- cGGCCUGGGGCGCGgGcucguucguggcuACGCUGauaGUCc -3'
miRNA:   3'- -UCGGACCCUGUGUgU-------------UGUGGCag-CAG- -5'
1571 3' -55.7 NC_001347.2 + 65982 0.66 0.950733
Target:  5'- cGCCUGGGcgcgACGCGgcgugcugcugcuCAACACCGUguUCa -3'
miRNA:   3'- uCGGACCC----UGUGU-------------GUUGUGGCAgcAG- -5'
1571 3' -55.7 NC_001347.2 + 67930 0.66 0.947015
Target:  5'- gGGCC-GGGACu-----CACCGUCGUUc -3'
miRNA:   3'- -UCGGaCCCUGuguguuGUGGCAGCAG- -5'
1571 3' -55.7 NC_001347.2 + 78626 0.79 0.370365
Target:  5'- gAGCCUGGGcGCGCGCGACGCCGa---- -3'
miRNA:   3'- -UCGGACCC-UGUGUGUUGUGGCagcag -5'
1571 3' -55.7 NC_001347.2 + 81617 0.71 0.746479
Target:  5'- aAGCCgUGGcauugaGACGCACGGCGCCGcCGcCg -3'
miRNA:   3'- -UCGG-ACC------CUGUGUGUUGUGGCaGCaG- -5'
1571 3' -55.7 NC_001347.2 + 88690 0.66 0.961171
Target:  5'- cGCCcugcUGGGACgACGCAAUggcggcggaucccaGCCcugaGUCGUCg -3'
miRNA:   3'- uCGG----ACCCUG-UGUGUUG--------------UGG----CAGCAG- -5'
1571 3' -55.7 NC_001347.2 + 92359 0.71 0.750254
Target:  5'- uAGCCUucGGGACGCGgcagcaaccaggcgcCGGCGCCGccuagCGUCa -3'
miRNA:   3'- -UCGGA--CCCUGUGU---------------GUUGUGGCa----GCAG- -5'
1571 3' -55.7 NC_001347.2 + 97602 0.7 0.818351
Target:  5'- uGUCUGGGGC-CGguGCugccGCCGUCGUUg -3'
miRNA:   3'- uCGGACCCUGuGUguUG----UGGCAGCAG- -5'
1571 3' -55.7 NC_001347.2 + 97969 0.66 0.962191
Target:  5'- cGCgUGcucGCGCACcgUACCGUCGUCc -3'
miRNA:   3'- uCGgACcc-UGUGUGuuGUGGCAGCAG- -5'
1571 3' -55.7 NC_001347.2 + 99541 0.66 0.952722
Target:  5'- cGGCC-GGGuCGCGCGGCAgugacagcuugugacCCGcgcUCGUCg -3'
miRNA:   3'- -UCGGaCCCuGUGUGUUGU---------------GGC---AGCAG- -5'
1571 3' -55.7 NC_001347.2 + 101996 0.68 0.893381
Target:  5'- aGGCC-GGGGCGCACAgcuuaACGCCGcUGa- -3'
miRNA:   3'- -UCGGaCCCUGUGUGU-----UGUGGCaGCag -5'
1571 3' -55.7 NC_001347.2 + 108208 0.68 0.899759
Target:  5'- cAGCaUGGaGuCGCGCGGuCGCCGUUGUCc -3'
miRNA:   3'- -UCGgACC-CuGUGUGUU-GUGGCAGCAG- -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.