miRNA display CGI


Results 1 - 20 of 45 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
11979 3' -61.8 NC_003278.1 + 2538 0.7 0.157644
Target:  5'- aUAGCGCCCAGgccagaucGGCG-UGGCCgguguugucguugCGGCCg -3'
miRNA:   3'- -GUCGCGGGUC--------CCGCgACUGGa------------GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 3257 0.69 0.181813
Target:  5'- aCAGuCGCCCuugcugcAGGGCGUcaUGACUuacgUCGAUCu -3'
miRNA:   3'- -GUC-GCGGG-------UCCCGCG--ACUGG----AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 3973 0.68 0.20811
Target:  5'- cCAGCGCuaCCAGGGCGgUGGuacggaaaC-CGACCu -3'
miRNA:   3'- -GUCGCG--GGUCCCGCgACUg-------GaGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 5900 0.67 0.237015
Target:  5'- -cGUGaCCCGGgccuGGUGgUGAuCCUCGGCCg -3'
miRNA:   3'- guCGC-GGGUC----CCGCgACU-GGAGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 6615 0.67 0.230977
Target:  5'- uCGGCgauGUCCAGGGCGCcGGCguaaUCG-CCg -3'
miRNA:   3'- -GUCG---CGGGUCCCGCGaCUGg---AGCuGG- -5'
11979 3' -61.8 NC_003278.1 + 8758 0.72 0.114615
Target:  5'- uGGcCGCCCucGGcGGCGCUGACUgcUCGcACCu -3'
miRNA:   3'- gUC-GCGGG--UC-CCGCGACUGG--AGC-UGG- -5'
11979 3' -61.8 NC_003278.1 + 9100 0.67 0.230977
Target:  5'- gAGCGUucgCCA-GGCGCUgGugCUCGGCg -3'
miRNA:   3'- gUCGCG---GGUcCCGCGA-CugGAGCUGg -5'
11979 3' -61.8 NC_003278.1 + 9136 0.68 0.192266
Target:  5'- gCAGCGCCUGGGcuacgucagcGUGCaGGCCUUcGCCg -3'
miRNA:   3'- -GUCGCGGGUCC----------CGCGaCUGGAGcUGG- -5'
11979 3' -61.8 NC_003278.1 + 9430 0.74 0.06899
Target:  5'- uGGCGCagaAGGcucacGCGCUGGCCUCGGCg -3'
miRNA:   3'- gUCGCGgg-UCC-----CGCGACUGGAGCUGg -5'
11979 3' -61.8 NC_003278.1 + 9574 0.66 0.269209
Target:  5'- gAGCGCCa--GGCccagGCcGACCUgGACCa -3'
miRNA:   3'- gUCGCGGgucCCG----CGaCUGGAgCUGG- -5'
11979 3' -61.8 NC_003278.1 + 9612 0.67 0.249489
Target:  5'- gCAGCuGCgCCA-GGCGCUGGCCauccgcgaacgcUUGAUCg -3'
miRNA:   3'- -GUCG-CG-GGUcCCGCGACUGG------------AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 9665 0.66 0.275366
Target:  5'- cCAGCGCCUGGcGCaGCUGcuGCCgcuguuggucaggUCGGCCu -3'
miRNA:   3'- -GUCGCGGGUCcCG-CGAC--UGG-------------AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 11837 0.66 0.269209
Target:  5'- gCAGCGCgUccGuGUGUUGACCggCGACCu -3'
miRNA:   3'- -GUCGCGgGucC-CGCGACUGGa-GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 12922 1.11 0.000089
Target:  5'- cCAGCGCCCAGGGCGCUGACCUCGACCa -3'
miRNA:   3'- -GUCGCGGGUCCCGCGACUGGAGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 12974 0.83 0.014371
Target:  5'- uCAGCGCCCuGGGCGCUGGCCagcaugUUGGCg -3'
miRNA:   3'- -GUCGCGGGuCCCGCGACUGG------AGCUGg -5'
11979 3' -61.8 NC_003278.1 + 13194 0.72 0.098011
Target:  5'- aGGcCGCCCAGGGCaacggcagcgccccgGCgGACCUgcUGGCCa -3'
miRNA:   3'- gUC-GCGGGUCCCG---------------CGaCUGGA--GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 13270 0.67 0.230977
Target:  5'- cCAGCagGUCCgccGGGGCGCUGccguuGCCcugggCGGCCu -3'
miRNA:   3'- -GUCG--CGGG---UCCCGCGAC-----UGGa----GCUGG- -5'
11979 3' -61.8 NC_003278.1 + 14235 0.69 0.163731
Target:  5'- -cGCGCCCGGcGaGacgGCUGACCccauccccUCGGCCg -3'
miRNA:   3'- guCGCGGGUC-C-Cg--CGACUGG--------AGCUGG- -5'
11979 3' -61.8 NC_003278.1 + 17769 0.69 0.172793
Target:  5'- --cUGCaCCAGGGUGgUGACCUCGuuCu -3'
miRNA:   3'- gucGCG-GGUCCCGCgACUGGAGCugG- -5'
11979 3' -61.8 NC_003278.1 + 17809 0.66 0.296699
Target:  5'- gCAcCGCCCA-GGUGCUGGCCgacacuaUCG-CCg -3'
miRNA:   3'- -GUcGCGGGUcCCGCGACUGG-------AGCuGG- -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.