miRNA display CGI


Results 21 - 38 of 38 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
12033 3' -50.6 NC_003278.1 + 31872 0.67 0.717352
Target:  5'- --gCGGGCGcCGACCGGA-UGCCGUg- -3'
miRNA:   3'- auaGUUUGC-GUUGGUCUaACGGCGgu -5'
12033 3' -50.6 NC_003278.1 + 21093 0.68 0.693941
Target:  5'- gAUCuauCGCAACUGGGacGCCGUCAa -3'
miRNA:   3'- aUAGuuuGCGUUGGUCUaaCGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 6039 0.68 0.682123
Target:  5'- gGUCGGugGCGAUCuucucGGUUGCCGgCu -3'
miRNA:   3'- aUAGUUugCGUUGGu----CUAACGGCgGu -5'
12033 3' -50.6 NC_003278.1 + 7834 0.68 0.680938
Target:  5'- gGUCAcGCcggcgguGCGACCGuagUGCCGCCAg -3'
miRNA:   3'- aUAGUuUG-------CGUUGGUcuaACGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 9091 0.68 0.670249
Target:  5'- --cCAGGCGCugguGCuCGGcggUGCCGCCGg -3'
miRNA:   3'- auaGUUUGCGu---UG-GUCua-ACGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 28412 0.68 0.658332
Target:  5'- gAUUAGGCGUucCCAGua-GCCGCCu -3'
miRNA:   3'- aUAGUUUGCGuuGGUCuaaCGGCGGu -5'
12033 3' -50.6 NC_003278.1 + 9056 0.68 0.658332
Target:  5'- --gCGAACGCucGCCAGAUcgacgauaccGCCGCCc -3'
miRNA:   3'- auaGUUUGCGu-UGGUCUAa---------CGGCGGu -5'
12033 3' -50.6 NC_003278.1 + 19126 0.69 0.642799
Target:  5'- gGUCGGccauggcguuuucuACGCGAUCAGGgagGCUGCCu -3'
miRNA:   3'- aUAGUU--------------UGCGUUGGUCUaa-CGGCGGu -5'
12033 3' -50.6 NC_003278.1 + 16623 0.7 0.58668
Target:  5'- gAUCGAGCGCGAUUGGcgcGaCCGCCAg -3'
miRNA:   3'- aUAGUUUGCGUUGGUCuaaC-GGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 15584 0.7 0.58668
Target:  5'- cGUCGAaggcaACGCGACgCAGAUUGCaaccggcuaUGCCGg -3'
miRNA:   3'- aUAGUU-----UGCGUUG-GUCUAACG---------GCGGU- -5'
12033 3' -50.6 NC_003278.1 + 28840 0.7 0.56303
Target:  5'- cGUCAugagGGCGCGcugcugaucGCCgAGAgUGCCGCCGa -3'
miRNA:   3'- aUAGU----UUGCGU---------UGG-UCUaACGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 28680 0.71 0.501826
Target:  5'- uUGUCcAGCGC--CCAGAUcaguuucggcagcuUGCCGCCAc -3'
miRNA:   3'- -AUAGuUUGCGuuGGUCUA--------------ACGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 14812 0.72 0.450109
Target:  5'- ----cAGCGUggUCGGGUUGCUGCCGg -3'
miRNA:   3'- auaguUUGCGuuGGUCUAACGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 3706 0.72 0.429004
Target:  5'- ---gGGGCGCAACCAGAUauuccUGUCgGCCAg -3'
miRNA:   3'- auagUUUGCGUUGGUCUA-----ACGG-CGGU- -5'
12033 3' -50.6 NC_003278.1 + 10261 0.73 0.408494
Target:  5'- cGUCAAGCGCcGCgAGGaugGCCGCUAc -3'
miRNA:   3'- aUAGUUUGCGuUGgUCUaa-CGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 12686 0.75 0.307302
Target:  5'- cAUCGAcCuCAGCCAG-UUGCCGCCAc -3'
miRNA:   3'- aUAGUUuGcGUUGGUCuAACGGCGGU- -5'
12033 3' -50.6 NC_003278.1 + 4446 0.75 0.291099
Target:  5'- cAUCGAGCGCGACUGGAUcgagcagaugGCCGCgCAg -3'
miRNA:   3'- aUAGUUUGCGUUGGUCUAa---------CGGCG-GU- -5'
12033 3' -50.6 NC_003278.1 + 33824 1.08 0.001606
Target:  5'- aUAUCAAACGCAACCAGAUUGCCGCCAg -3'
miRNA:   3'- -AUAGUUUGCGUUGGUCUAACGGCGGU- -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.