miRNA display CGI


Results 1 - 20 of 35 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
12429 3' -50.1 NC_003324.1 + 29839 0.66 0.960443
Target:  5'- gCCGAUCcuUggGCgCAUcGAGG-CGUa -3'
miRNA:   3'- -GGCUAGuuGuuCGgGUAaCUCCaGCG- -5'
12429 3' -50.1 NC_003324.1 + 36541 0.66 0.960443
Target:  5'- uCCGAUCuggAACAAGCgCCGc--GGG-CGCg -3'
miRNA:   3'- -GGCUAG---UUGUUCG-GGUaacUCCaGCG- -5'
12429 3' -50.1 NC_003324.1 + 31864 0.66 0.960443
Target:  5'- gCCGAau-ACGGGCCCGaaGAGGcCGg -3'
miRNA:   3'- -GGCUaguUGUUCGGGUaaCUCCaGCg -5'
12429 3' -50.1 NC_003324.1 + 28061 0.66 0.960443
Target:  5'- aUCGAcaucuUCGugAAGCCCGguaccGAGGU-GCu -3'
miRNA:   3'- -GGCU-----AGUugUUCGGGUaa---CUCCAgCG- -5'
12429 3' -50.1 NC_003324.1 + 42084 0.66 0.956389
Target:  5'- aCGG-CAACGAGCCUAUcagcaGGGGccgggagcgcuUCGCa -3'
miRNA:   3'- gGCUaGUUGUUCGGGUAa----CUCC-----------AGCG- -5'
12429 3' -50.1 NC_003324.1 + 24975 0.66 0.952061
Target:  5'- -gGAUgGA-GAGCUUGUUGAGGUgGCg -3'
miRNA:   3'- ggCUAgUUgUUCGGGUAACUCCAgCG- -5'
12429 3' -50.1 NC_003324.1 + 22255 0.66 0.947455
Target:  5'- gCCGAUCGcgGCGAGCUgCGccUUGAuGUCGUc -3'
miRNA:   3'- -GGCUAGU--UGUUCGG-GU--AACUcCAGCG- -5'
12429 3' -50.1 NC_003324.1 + 57250 0.66 0.947455
Target:  5'- gUGAgCGGCAGGCCC-UUGGcuUCGCa -3'
miRNA:   3'- gGCUaGUUGUUCGGGuAACUccAGCG- -5'
12429 3' -50.1 NC_003324.1 + 2736 0.66 0.942565
Target:  5'- gCCGAUC-GCGcGCCCAcaGuGG-CGCa -3'
miRNA:   3'- -GGCUAGuUGUuCGGGUaaCuCCaGCG- -5'
12429 3' -50.1 NC_003324.1 + 29151 0.66 0.942565
Target:  5'- aCGAguUCGGCGuGUCCGUcGAGGaccUCGCc -3'
miRNA:   3'- gGCU--AGUUGUuCGGGUAaCUCC---AGCG- -5'
12429 3' -50.1 NC_003324.1 + 22320 0.66 0.942565
Target:  5'- gCGAUCGGCAAGa-CGUUGccgcucccgaAGGUgCGCg -3'
miRNA:   3'- gGCUAGUUGUUCggGUAAC----------UCCA-GCG- -5'
12429 3' -50.1 NC_003324.1 + 50687 0.66 0.942565
Target:  5'- aCGAUCuGC-AGCUCGUcGAGGgcggCGUg -3'
miRNA:   3'- gGCUAGuUGuUCGGGUAaCUCCa---GCG- -5'
12429 3' -50.1 NC_003324.1 + 27627 0.66 0.942565
Target:  5'- gCCGG-CAGcCGAGCCCGaaacAGGUcCGCg -3'
miRNA:   3'- -GGCUaGUU-GUUCGGGUaac-UCCA-GCG- -5'
12429 3' -50.1 NC_003324.1 + 42507 0.67 0.937388
Target:  5'- uCCGGUCccCAcGGCaaAUUGGGGUCaGCa -3'
miRNA:   3'- -GGCUAGuuGU-UCGggUAACUCCAG-CG- -5'
12429 3' -50.1 NC_003324.1 + 5432 0.67 0.937388
Target:  5'- aUGGUCAGCGucggGGCgCCGUUGGuGUCGa -3'
miRNA:   3'- gGCUAGUUGU----UCG-GGUAACUcCAGCg -5'
12429 3' -50.1 NC_003324.1 + 43147 0.67 0.931923
Target:  5'- cUCGA-CGGCGAGCUUGUUGAGcgagCGCc -3'
miRNA:   3'- -GGCUaGUUGUUCGGGUAACUCca--GCG- -5'
12429 3' -50.1 NC_003324.1 + 19921 0.67 0.931923
Target:  5'- gCCGGUCugauaGACGAGCCCAgucccUGGGacacaUUGCa -3'
miRNA:   3'- -GGCUAG-----UUGUUCGGGUa----ACUCc----AGCG- -5'
12429 3' -50.1 NC_003324.1 + 29345 0.67 0.926167
Target:  5'- gCCGAUCGagcGCGAGCCCGgcgaUGcAGGccCGa -3'
miRNA:   3'- -GGCUAGU---UGUUCGGGUa---AC-UCCa-GCg -5'
12429 3' -50.1 NC_003324.1 + 11750 0.67 0.913785
Target:  5'- gUGGUCAAUGccguGCCCGgcccGGUCGCg -3'
miRNA:   3'- gGCUAGUUGUu---CGGGUaacuCCAGCG- -5'
12429 3' -50.1 NC_003324.1 + 32173 0.68 0.90716
Target:  5'- aCCGG-CGACGAGCC----GAGG-CGCa -3'
miRNA:   3'- -GGCUaGUUGUUCGGguaaCUCCaGCG- -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.