miRNA display CGI


Results 1 - 20 of 27 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
12588 5' -50.6 NC_003345.1 + 6348 0.66 0.976736
Target:  5'- gGAAGCUGACUgUCGAGUUcAccGUCGa -3'
miRNA:   3'- gCUUCGGCUGG-AGCUUAAcUucCAGC- -5'
12588 5' -50.6 NC_003345.1 + 42468 0.66 0.974013
Target:  5'- uGAAGuUCGACUUCGAGgaaaucGAAGG-CGa -3'
miRNA:   3'- gCUUC-GGCUGGAGCUUaa----CUUCCaGC- -5'
12588 5' -50.6 NC_003345.1 + 4624 0.66 0.974013
Target:  5'- cCGAAGCCuGCCg-GAGUcggUGGAGGUa- -3'
miRNA:   3'- -GCUUCGGcUGGagCUUA---ACUUCCAgc -5'
12588 5' -50.6 NC_003345.1 + 60540 0.66 0.971065
Target:  5'- uGggGCgGuguguCCUCGGAUagagauucGggGGUCGc -3'
miRNA:   3'- gCuuCGgCu----GGAGCUUAa-------CuuCCAGC- -5'
12588 5' -50.6 NC_003345.1 + 76222 0.66 0.971065
Target:  5'- cCGAguAGCCcGCCUCGA--UGAuGGUgGg -3'
miRNA:   3'- -GCU--UCGGcUGGAGCUuaACUuCCAgC- -5'
12588 5' -50.6 NC_003345.1 + 10557 0.66 0.971065
Target:  5'- uCGAcgGGCCGACCg-GGAUUGGGaaGUCGc -3'
miRNA:   3'- -GCU--UCGGCUGGagCUUAACUUc-CAGC- -5'
12588 5' -50.6 NC_003345.1 + 66504 0.66 0.967884
Target:  5'- -cGAGCCGGgUggcCGGAUUGAGGGaaUCGa -3'
miRNA:   3'- gcUUCGGCUgGa--GCUUAACUUCC--AGC- -5'
12588 5' -50.6 NC_003345.1 + 5366 0.66 0.964463
Target:  5'- gGAGGaaGACCUCGGAaucggUGAGcGGUgGa -3'
miRNA:   3'- gCUUCggCUGGAGCUUa----ACUU-CCAgC- -5'
12588 5' -50.6 NC_003345.1 + 69896 0.66 0.964463
Target:  5'- cCGAAGCCGcucucCCUCugcUUGAGGGUg- -3'
miRNA:   3'- -GCUUCGGCu----GGAGcuuAACUUCCAgc -5'
12588 5' -50.6 NC_003345.1 + 69253 0.66 0.962293
Target:  5'- uCGAAGCUGACCccggCGAGUgggagaagcugagcGAGGG-CGa -3'
miRNA:   3'- -GCUUCGGCUGGa---GCUUAa-------------CUUCCaGC- -5'
12588 5' -50.6 NC_003345.1 + 51775 0.66 0.960795
Target:  5'- cCGAAGUCGgggucaACCUCGAAcacguAGGUCu -3'
miRNA:   3'- -GCUUCGGC------UGGAGCUUaacu-UCCAGc -5'
12588 5' -50.6 NC_003345.1 + 21247 0.67 0.956873
Target:  5'- aCGgcGCucCGACCgaaGAcgUGggGGUUGa -3'
miRNA:   3'- -GCuuCG--GCUGGag-CUuaACuuCCAGC- -5'
12588 5' -50.6 NC_003345.1 + 32466 0.67 0.956873
Target:  5'- cCGAcGCCGACCUCGA--UGc-GGUg- -3'
miRNA:   3'- -GCUuCGGCUGGAGCUuaACuuCCAgc -5'
12588 5' -50.6 NC_003345.1 + 42856 0.67 0.956467
Target:  5'- uCGAGGCCGACgaugUGGggUGucguacaGAGGUCGg -3'
miRNA:   3'- -GCUUCGGCUGga--GCUuaAC-------UUCCAGC- -5'
12588 5' -50.6 NC_003345.1 + 45868 0.67 0.956058
Target:  5'- gGAGGaaaaCGACCUCGAuguggacgccgUGAAGGagGa -3'
miRNA:   3'- gCUUCg---GCUGGAGCUua---------ACUUCCagC- -5'
12588 5' -50.6 NC_003345.1 + 59985 0.67 0.948247
Target:  5'- aCGAuGGgCGACCUCGA--UGAuauugccagucAGGUCa -3'
miRNA:   3'- -GCU-UCgGCUGGAGCUuaACU-----------UCCAGc -5'
12588 5' -50.6 NC_003345.1 + 70504 0.68 0.933289
Target:  5'- aCGAAGCCaacccCCUCGAugUGggGGaguccUCGg -3'
miRNA:   3'- -GCUUCGGcu---GGAGCUuaACuuCC-----AGC- -5'
12588 5' -50.6 NC_003345.1 + 29638 0.68 0.921945
Target:  5'- uCGAAGCguuCGAcCCUCGAAU---GGGUCa -3'
miRNA:   3'- -GCUUCG---GCU-GGAGCUUAacuUCCAGc -5'
12588 5' -50.6 NC_003345.1 + 28955 0.68 0.915859
Target:  5'- -aAGGCCGuCCUCGGGaUGcagaugaugcccGAGGUCGa -3'
miRNA:   3'- gcUUCGGCuGGAGCUUaAC------------UUCCAGC- -5'
12588 5' -50.6 NC_003345.1 + 62340 0.69 0.902868
Target:  5'- uGAAGgCGACUUCGAGaauacUGAcuucgaugAGGUCGa -3'
miRNA:   3'- gCUUCgGCUGGAGCUUa----ACU--------UCCAGC- -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.