miRNA display CGI


Results 1 - 12 of 12 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
18920 3' -47.9 NC_004683.1 + 5373 0.66 0.989479
Target:  5'- cGCG-UCGAg--CUCggCCUGgcGACGg -3'
miRNA:   3'- -UGCaAGCUaaaGAGuaGGGCuuCUGC- -5'
18920 3' -47.9 NC_004683.1 + 4053 0.66 0.986151
Target:  5'- cACGUUCGc---CUCGaaUCCCGAcGGCa -3'
miRNA:   3'- -UGCAAGCuaaaGAGU--AGGGCUuCUGc -5'
18920 3' -47.9 NC_004683.1 + 664 0.66 0.985011
Target:  5'- gGCGUUCGAgUUCguggUCAUCgCGGcgcggcagaaccucaAGACGg -3'
miRNA:   3'- -UGCAAGCUaAAG----AGUAGgGCU---------------UCUGC- -5'
18920 3' -47.9 NC_004683.1 + 32946 0.66 0.984211
Target:  5'- gGCGUUgGAUUggcCUCgAUCCgGucGACGa -3'
miRNA:   3'- -UGCAAgCUAAa--GAG-UAGGgCuuCUGC- -5'
18920 3' -47.9 NC_004683.1 + 3105 0.67 0.979721
Target:  5'- aGCGgaaUCGGgcccUUCUCAUCgCCGggGugcACGa -3'
miRNA:   3'- -UGCa--AGCUa---AAGAGUAG-GGCuuC---UGC- -5'
18920 3' -47.9 NC_004683.1 + 14461 0.67 0.974344
Target:  5'- uCGUUCGcgUUCUCcua-CGAGGACa -3'
miRNA:   3'- uGCAAGCuaAAGAGuaggGCUUCUGc -5'
18920 3' -47.9 NC_004683.1 + 32092 0.67 0.971297
Target:  5'- uGCGggCGAUgccggUCUUGUCCUu-GGACGg -3'
miRNA:   3'- -UGCaaGCUAa----AGAGUAGGGcuUCUGC- -5'
18920 3' -47.9 NC_004683.1 + 2564 0.68 0.964439
Target:  5'- cACGUUCGGcagcagggaUUUgCagAUCCUGGAGACGc -3'
miRNA:   3'- -UGCAAGCU---------AAA-GagUAGGGCUUCUGC- -5'
18920 3' -47.9 NC_004683.1 + 50993 0.68 0.956509
Target:  5'- gGCGc-CGAggggUUCUCGUcugCCCGAGGGCu -3'
miRNA:   3'- -UGCaaGCUa---AAGAGUA---GGGCUUCUGc -5'
18920 3' -47.9 NC_004683.1 + 30756 0.7 0.906466
Target:  5'- cGCGUUCGGcggcgUUCUCGaCCUGGcGGGCGa -3'
miRNA:   3'- -UGCAAGCUa----AAGAGUaGGGCU-UCUGC- -5'
18920 3' -47.9 NC_004683.1 + 13668 0.73 0.785076
Target:  5'- uGCGUgaugaaccggaaucgCGggUUCUCGgcgagCCCGAGGGCGa -3'
miRNA:   3'- -UGCAa--------------GCuaAAGAGUa----GGGCUUCUGC- -5'
18920 3' -47.9 NC_004683.1 + 39041 1.09 0.006802
Target:  5'- aACGUUCGAUUUCUCAUCCCGAAGACGu -3'
miRNA:   3'- -UGCAAGCUAAAGAGUAGGGCUUCUGC- -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.