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 + 19647 0.66 0.291657
Target:  5'- gUCGCGCUcaugcugGCCGA-GGUUGCGggugcugagcCGGCg -3'
miRNA:   3'- gGGCGCGG-------CGGCUgCCAGCGCa---------GCCG- -5'
11980 5' -63.6 NC_003278.1 + 30554 0.68 0.212279
Target:  5'- gCCGCGUCGgccaccuuCUGGCGGU-G-GUCGGCg -3'
miRNA:   3'- gGGCGCGGC--------GGCUGCCAgCgCAGCCG- -5'
11980 5' -63.6 NC_003278.1 + 26894 0.68 0.206972
Target:  5'- aCCGCGCCugaUGGCGGUgGCGacgccccUGGCg -3'
miRNA:   3'- gGGCGCGGcg-GCUGCCAgCGCa------GCCG- -5'
11980 5' -63.6 NC_003278.1 + 29879 0.78 0.032745
Target:  5'- gCgGCGCCGCCGGCGcggcuguuGUCGCugcgGUCGGCc -3'
miRNA:   3'- gGgCGCGGCGGCUGC--------CAGCG----CAGCCG- -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 + 23265 0.66 0.265452
Target:  5'- gUgGCGCUGCCacgcuguaGGCGGUuccacucggCGCGggCGGCg -3'
miRNA:   3'- gGgCGCGGCGG--------CUGCCA---------GCGCa-GCCG- -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 + 12336 0.66 0.292355
Target:  5'- gCCCGguaugaCGCCGCCGugGGUaugacCGaccaGGCu -3'
miRNA:   3'- -GGGC------GCGGCGGCugCCA-----GCgcagCCG- -5'
11980 5' -63.6 NC_003278.1 + 22712 0.68 0.212279
Target:  5'- -gCGCGCCGCUGugcuCGGUUuCGUCGa- -3'
miRNA:   3'- ggGCGCGGCGGCu---GCCAGcGCAGCcg -5'
11980 5' -63.6 NC_003278.1 + 14274 0.67 0.227194
Target:  5'- -gCGCGCCGCCGGC-GUCaccgaugagcauauGgGUgGGCu -3'
miRNA:   3'- ggGCGCGGCGGCUGcCAG--------------CgCAgCCG- -5'
11980 5' -63.6 NC_003278.1 + 22041 0.67 0.228905
Target:  5'- gCgGCuGCUGCUGGCGuGUCGCcacUCGGUc -3'
miRNA:   3'- gGgCG-CGGCGGCUGC-CAGCGc--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 + 19895 0.67 0.223244
Target:  5'- gCCUGgGUgGCCGACaucGUUGCGUCGa- -3'
miRNA:   3'- -GGGCgCGgCGGCUGc--CAGCGCAGCcg -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 + 27016 0.67 0.234687
Target:  5'- aCUGCGCCGacuuCGGCauGUCGUG-CGGCc -3'
miRNA:   3'- gGGCGCGGCg---GCUGc-CAGCGCaGCCG- -5'
11980 5' -63.6 NC_003278.1 + 30412 0.67 0.217702
Target:  5'- aCUCG-GCCaCCu-CGGgCGCGUCGGCg -3'
miRNA:   3'- -GGGCgCGGcGGcuGCCaGCGCAGCCG- -5'
11980 5' -63.6 NC_003278.1 + 23491 0.68 0.206972
Target:  5'- gCCGguguaGUCGCCGcCGGUguCGUCGGCc -3'
miRNA:   3'- gGGCg----CGGCGGCuGCCAgcGCAGCCG- -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 + 16699 0.66 0.265452
Target:  5'- gUCgGUGUCGUCGagcugGCGGUCGCGccaaUCGcGCu -3'
miRNA:   3'- -GGgCGCGGCGGC-----UGCCAGCGC----AGC-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.