miRNA display CGI


Results 1 - 17 of 17 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
12623 3' -54.1 NC_003345.1 + 62497 0.66 0.864284
Target:  5'- gCCCC-UCCGGUUCAucGAGaacacgguuacgauuGGGAcuucgGCg -3'
miRNA:   3'- -GGGGuAGGUCGAGUuuCUC---------------CCCUa----CG- -5'
12623 3' -54.1 NC_003345.1 + 39715 0.66 0.861075
Target:  5'- cCUCCAUCCAGCguucGAGAGccuucGcGGUGCg -3'
miRNA:   3'- -GGGGUAGGUCGagu-UUCUCc----C-CUACG- -5'
12623 3' -54.1 NC_003345.1 + 32626 0.66 0.85289
Target:  5'- gCUCGUCCGGCUCGAAGuuGaGcuUGCu -3'
miRNA:   3'- gGGGUAGGUCGAGUUUCucC-CcuACG- -5'
12623 3' -54.1 NC_003345.1 + 73097 0.66 0.834985
Target:  5'- aCCCC-UCCGGUUCAGguggaacAGAcGGaGGA-GCg -3'
miRNA:   3'- -GGGGuAGGUCGAGUU-------UCU-CC-CCUaCG- -5'
12623 3' -54.1 NC_003345.1 + 8973 0.67 0.82434
Target:  5'- aUCCCGUCC-GCgaagaaaucuucaaUCGGGGAGGuGGAaacgGCg -3'
miRNA:   3'- -GGGGUAGGuCG--------------AGUUUCUCC-CCUa---CG- -5'
12623 3' -54.1 NC_003345.1 + 13051 0.67 0.817999
Target:  5'- aUCCAUCCAGUaggUCGGGaAGGGGugagucgGCa -3'
miRNA:   3'- gGGGUAGGUCG---AGUUUcUCCCCua-----CG- -5'
12623 3' -54.1 NC_003345.1 + 50498 0.67 0.799383
Target:  5'- uCCCCGUgUGGCUCGAAGAcuGGcucguuucGGGUGg -3'
miRNA:   3'- -GGGGUAgGUCGAGUUUCU--CC--------CCUACg -5'
12623 3' -54.1 NC_003345.1 + 34300 0.68 0.729453
Target:  5'- aCCUCAgcgaCCAGCUCAccGuGGacgugaagcGGAUGCa -3'
miRNA:   3'- -GGGGUa---GGUCGAGUuuCuCC---------CCUACG- -5'
12623 3' -54.1 NC_003345.1 + 65438 0.68 0.729453
Target:  5'- gCgCAUCCA-CUCAucGAGGuGGGUGUc -3'
miRNA:   3'- gGgGUAGGUcGAGUuuCUCC-CCUACG- -5'
12623 3' -54.1 NC_003345.1 + 41853 0.69 0.676459
Target:  5'- gUCCCAuUCCGGUUUcuuGAGGGcaGAUGCu -3'
miRNA:   3'- -GGGGU-AGGUCGAGuuuCUCCC--CUACG- -5'
12623 3' -54.1 NC_003345.1 + 65031 0.69 0.676459
Target:  5'- gCCCUcgCCAGCguauccUCGGGGAaGGGGUGg -3'
miRNA:   3'- -GGGGuaGGUCG------AGUUUCUcCCCUACg -5'
12623 3' -54.1 NC_003345.1 + 11569 0.7 0.654904
Target:  5'- -aCCAUCguCGGCUCGauGAGuGGGGAcgGCg -3'
miRNA:   3'- ggGGUAG--GUCGAGU--UUCuCCCCUa-CG- -5'
12623 3' -54.1 NC_003345.1 + 46346 0.7 0.633266
Target:  5'- uCCCCAUCCccgagauuaccgAGCgCGucGGuGGGAUGCg -3'
miRNA:   3'- -GGGGUAGG------------UCGaGUuuCUcCCCUACG- -5'
12623 3' -54.1 NC_003345.1 + 66597 0.71 0.568615
Target:  5'- gCCCGUCCGucucuGCccCAucGAGGGuGAUGCu -3'
miRNA:   3'- gGGGUAGGU-----CGa-GUuuCUCCC-CUACG- -5'
12623 3' -54.1 NC_003345.1 + 30756 0.71 0.557967
Target:  5'- aCCCCugaaagCGGCUCAAuucGGGGAUGUg -3'
miRNA:   3'- -GGGGuag---GUCGAGUUucuCCCCUACG- -5'
12623 3' -54.1 NC_003345.1 + 43997 0.72 0.547378
Target:  5'- uUUCGUCCAGCUCGGAcuGGGGGUa- -3'
miRNA:   3'- gGGGUAGGUCGAGUUUcuCCCCUAcg -5'
12623 3' -54.1 NC_003345.1 + 35797 1.15 0.000786
Target:  5'- aCCCCAUCCAGCUCAAAGAGGGGAUGCg -3'
miRNA:   3'- -GGGGUAGGUCGAGUUUCUCCCCUACG- -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.