miRNA display CGI


Results 1 - 20 of 55 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
11980 5' -63.6 NC_003278.1 + 12336 0.66 0.292355
Target:  5'- gCCCGguaugaCGCCGCCGugGGUaugacCGaccaGGCu -3'
miRNA:   3'- -GGGC------GCGGCGGCugCCA-----GCgcagCCG- -5'
11980 5' -63.6 NC_003278.1 + 22384 0.66 0.292355
Target:  5'- aCCaGCGCCGUCGACcaguugcagCGCGacgcCGGCu -3'
miRNA:   3'- gGG-CGCGGCGGCUGcca------GCGCa---GCCG- -5'
11980 5' -63.6 NC_003278.1 + 8104 0.66 0.292355
Target:  5'- gCCUGCuGUCGCUGAuccugcCGaccUGCGUCGGCu -3'
miRNA:   3'- -GGGCG-CGGCGGCU------GCca-GCGCAGCCG- -5'
11980 5' -63.6 NC_003278.1 + 19647 0.66 0.291657
Target:  5'- gUCGCGCUcaugcugGCCGA-GGUUGCGggugcugagcCGGCg -3'
miRNA:   3'- gGGCGCGG-------CGGCUgCCAGCGCa---------GCCG- -5'
11980 5' -63.6 NC_003278.1 + 3600 0.66 0.291657
Target:  5'- aCCCGaucaucCUGCCGaACGG-CGCGgaauugcacuuccUCGGCa -3'
miRNA:   3'- -GGGCgc----GGCGGC-UGCCaGCGC-------------AGCCG- -5'
11980 5' -63.6 NC_003278.1 + 21505 0.66 0.285435
Target:  5'- cCCUGgGCCagGCCGGCcauGGUgaaccCGCccagGUCGGCg -3'
miRNA:   3'- -GGGCgCGG--CGGCUG---CCA-----GCG----CAGCCG- -5'
11980 5' -63.6 NC_003278.1 + 26564 0.66 0.285435
Target:  5'- -aCGCGgCGCCaGGUGGUCaGCGcgaucaUCGGCg -3'
miRNA:   3'- ggGCGCgGCGG-CUGCCAG-CGC------AGCCG- -5'
11980 5' -63.6 NC_003278.1 + 20798 0.66 0.285435
Target:  5'- gCCGCGUuuucggCGCUGAUGGcuacCGUUGGCa -3'
miRNA:   3'- gGGCGCG------GCGGCUGCCagc-GCAGCCG- -5'
11980 5' -63.6 NC_003278.1 + 31635 0.66 0.284067
Target:  5'- gCgGCGCCGCaggcuucaaccgGGCGcGUcCGCGggUCGGCa -3'
miRNA:   3'- gGgCGCGGCGg-----------CUGC-CA-GCGC--AGCCG- -5'
11980 5' -63.6 NC_003278.1 + 7761 0.66 0.278645
Target:  5'- gCUGUGCUGgCGgcacuACGGUCGCaccGcCGGCg -3'
miRNA:   3'- gGGCGCGGCgGC-----UGCCAGCG---CaGCCG- -5'
11980 5' -63.6 NC_003278.1 + 21835 0.66 0.271985
Target:  5'- gCCCGCGCCgGCCugGAUGGUgauguaguaaGUGUCGccGCc -3'
miRNA:   3'- -GGGCGCGG-CGG--CUGCCAg---------CGCAGC--CG- -5'
11980 5' -63.6 NC_003278.1 + 31439 0.66 0.271985
Target:  5'- -gCGaGCCGCCGACguGGUUGUGcuagccUUGGCg -3'
miRNA:   3'- ggGCgCGGCGGCUG--CCAGCGC------AGCCG- -5'
11980 5' -63.6 NC_003278.1 + 29370 0.66 0.271985
Target:  5'- gCCUGCuaCGUucugggcgacgUGGCGGUgCGCGgCGGCg -3'
miRNA:   3'- -GGGCGcgGCG-----------GCUGCCA-GCGCaGCCG- -5'
11980 5' -63.6 NC_003278.1 + 23265 0.66 0.265452
Target:  5'- gUgGCGCUGCCacgcuguaGGCGGUuccacucggCGCGggCGGCg -3'
miRNA:   3'- gGgCGCGGCGG--------CUGCCA---------GCGCa-GCCG- -5'
11980 5' -63.6 NC_003278.1 + 19452 0.66 0.265452
Target:  5'- aCCCGUGCCuGuuGcGCGGccaGCG-CGGUg -3'
miRNA:   3'- -GGGCGCGG-CggC-UGCCag-CGCaGCCG- -5'
11980 5' -63.6 NC_003278.1 + 16699 0.66 0.265452
Target:  5'- gUCgGUGUCGUCGagcugGCGGUCGCGccaaUCGcGCu -3'
miRNA:   3'- -GGgCGCGGCGGC-----UGCCAGCGC----AGC-CG- -5'
11980 5' -63.6 NC_003278.1 + 29868 0.66 0.259048
Target:  5'- uUCaaGCCGCUGuucaACGGUCGCGcguUgGGCg -3'
miRNA:   3'- gGGcgCGGCGGC----UGCCAGCGC---AgCCG- -5'
11980 5' -63.6 NC_003278.1 + 8811 0.66 0.259048
Target:  5'- --aGCGCCGCCGAgGGcggccagggucuUCGgGccagcgaugccaUCGGCg -3'
miRNA:   3'- gggCGCGGCGGCUgCC------------AGCgC------------AGCCG- -5'
11980 5' -63.6 NC_003278.1 + 17474 0.67 0.240591
Target:  5'- uCuuGCaGCCGCUGGCGGagacauaaGCGaaGGCg -3'
miRNA:   3'- -GggCG-CGGCGGCUGCCag------CGCagCCG- -5'
11980 5' -63.6 NC_003278.1 + 27016 0.67 0.234687
Target:  5'- aCUGCGCCGacuuCGGCauGUCGUG-CGGCc -3'
miRNA:   3'- gGGCGCGGCg---GCUGc-CAGCGCaGCCG- -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.