miRNA display CGI


Results 1 - 20 of 23 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
13378 3' -57.1 NC_003409.1 + 131366 0.66 0.860079
Target:  5'- aGUGccCCGUACGCGcUCAUg--GCCGCg -3'
miRNA:   3'- -CACa-GGCAUGUGCcGGUGacaCGGCG- -5'
13378 3' -57.1 NC_003409.1 + 68041 0.66 0.860079
Target:  5'- cGUGUCCGUugaacugcgcACGCGGCCcGCUaccaCUGCu -3'
miRNA:   3'- -CACAGGCA----------UGUGCCGG-UGAcac-GGCG- -5'
13378 3' -57.1 NC_003409.1 + 109479 0.66 0.859314
Target:  5'- aUGUCuUGUcACGCuGCCaacaaugcucaagGCUGUGCCGUa -3'
miRNA:   3'- cACAG-GCA-UGUGcCGG-------------UGACACGGCG- -5'
13378 3' -57.1 NC_003409.1 + 74556 0.66 0.85234
Target:  5'- aGUGUUCGca-AgGGCguCUGUGCCuGCg -3'
miRNA:   3'- -CACAGGCaugUgCCGguGACACGG-CG- -5'
13378 3' -57.1 NC_003409.1 + 131399 0.66 0.85234
Target:  5'- -cG-CCGUG--UGGCCGCguugGUGCUGCc -3'
miRNA:   3'- caCaGGCAUguGCCGGUGa---CACGGCG- -5'
13378 3' -57.1 NC_003409.1 + 14819 0.66 0.836271
Target:  5'- -----gGUACGCGGCC-CUccGCCGCa -3'
miRNA:   3'- cacaggCAUGUGCCGGuGAcaCGGCG- -5'
13378 3' -57.1 NC_003409.1 + 3871 0.66 0.827956
Target:  5'- uUGUCUGagaggGCACGGgCACcaguuUGCCGCc -3'
miRNA:   3'- cACAGGCa----UGUGCCgGUGac---ACGGCG- -5'
13378 3' -57.1 NC_003409.1 + 45167 0.67 0.793003
Target:  5'- gGUGUgCaGUA-ACGGCCACaUGUGCgGUa -3'
miRNA:   3'- -CACAgG-CAUgUGCCGGUG-ACACGgCG- -5'
13378 3' -57.1 NC_003409.1 + 40523 0.67 0.793003
Target:  5'- gGUGUCUGcucguuggACGCGGCCGuucgGUGgCGCc -3'
miRNA:   3'- -CACAGGCa-------UGUGCCGGUga--CACgGCG- -5'
13378 3' -57.1 NC_003409.1 + 7375 0.68 0.765243
Target:  5'- cGUGUCUGggaGCAUGGCCugcagACUgGUGCCc- -3'
miRNA:   3'- -CACAGGCa--UGUGCCGG-----UGA-CACGGcg -5'
13378 3' -57.1 NC_003409.1 + 46199 0.68 0.736425
Target:  5'- aUGUCUGUAguuaugGCGGCCACgUGgGCCGg -3'
miRNA:   3'- cACAGGCAUg-----UGCCGGUG-ACaCGGCg -5'
13378 3' -57.1 NC_003409.1 + 48369 0.69 0.716746
Target:  5'- -cGUCaUGUGCA-GGagugaCAUUGUGCCGCg -3'
miRNA:   3'- caCAG-GCAUGUgCCg----GUGACACGGCG- -5'
13378 3' -57.1 NC_003409.1 + 75832 0.69 0.716746
Target:  5'- -cGUCCGUugGCGa-CGCUG-GCUGCu -3'
miRNA:   3'- caCAGGCAugUGCcgGUGACaCGGCG- -5'
13378 3' -57.1 NC_003409.1 + 52668 0.69 0.706794
Target:  5'- -cGUCCGUGC-C-GCCACaGUuuacGCCGCg -3'
miRNA:   3'- caCAGGCAUGuGcCGGUGaCA----CGGCG- -5'
13378 3' -57.1 NC_003409.1 + 43711 0.69 0.696779
Target:  5'- cUGUCCGUcgucuccggACGcCGGCCACc-UGCUGCc -3'
miRNA:   3'- cACAGGCA---------UGU-GCCGGUGacACGGCG- -5'
13378 3' -57.1 NC_003409.1 + 109778 0.69 0.68671
Target:  5'- aUGaUCCG-ACACGGCUuCUGgacUGCUGCg -3'
miRNA:   3'- cAC-AGGCaUGUGCCGGuGAC---ACGGCG- -5'
13378 3' -57.1 NC_003409.1 + 9902 0.69 0.676596
Target:  5'- cGUGUCgGUAaaguUGGCCACUGgcguuagaggaGCCGUg -3'
miRNA:   3'- -CACAGgCAUgu--GCCGGUGACa----------CGGCG- -5'
13378 3' -57.1 NC_003409.1 + 59802 0.71 0.584932
Target:  5'- -gGcCCGaUAUACGGCCACc--GCCGCg -3'
miRNA:   3'- caCaGGC-AUGUGCCGGUGacaCGGCG- -5'
13378 3' -57.1 NC_003409.1 + 110846 0.72 0.534837
Target:  5'- uUGUCCGcgACAaucuuCGGCUGCUGU-CCGCg -3'
miRNA:   3'- cACAGGCa-UGU-----GCCGGUGACAcGGCG- -5'
13378 3' -57.1 NC_003409.1 + 120604 0.73 0.486336
Target:  5'- uGUGUCCG-AUGCGGCC-CcGUGCCuuGCg -3'
miRNA:   3'- -CACAGGCaUGUGCCGGuGaCACGG--CG- -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.