miRNA display CGI


Results 1 - 20 of 25 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
26135 3' -62.9 NC_005342.2 + 20285 0.66 0.341211
Target:  5'- gGUCGaucgCCGcCACGaaagcGCGAGCCGCgCCc -3'
miRNA:   3'- -CAGCa---GGCaGUGCc----CGCUCGGCG-GGc -5'
26135 3' -62.9 NC_005342.2 + 12425 0.66 0.340429
Target:  5'- -gCG-CCGggcggggCGCGGGCGGGCgcuacggCGCCCc -3'
miRNA:   3'- caGCaGGCa------GUGCCCGCUCG-------GCGGGc -5'
26135 3' -62.9 NC_005342.2 + 9423 0.66 0.338092
Target:  5'- uUCG-CCGUCuugcgcgccaaguGCGGGCgccgcaccgccgccGAGCUGCUCGa -3'
miRNA:   3'- cAGCaGGCAG-------------UGCCCG--------------CUCGGCGGGC- -5'
26135 3' -62.9 NC_005342.2 + 13865 0.66 0.333452
Target:  5'- aGUCGgCCGgCACGGGCugcgcggcGGCCGUCgCGa -3'
miRNA:   3'- -CAGCaGGCaGUGCCCGc-------UCGGCGG-GC- -5'
26135 3' -62.9 NC_005342.2 + 41098 0.66 0.325822
Target:  5'- -aCGUCCaUCGCgcgccGGGCGAGCUcgGCCuCGu -3'
miRNA:   3'- caGCAGGcAGUG-----CCCGCUCGG--CGG-GC- -5'
26135 3' -62.9 NC_005342.2 + 30820 0.67 0.299437
Target:  5'- --gGcCCGUCAgCGGcGCGAGCUgcugcucgcgcgcgaGCCCGg -3'
miRNA:   3'- cagCaGGCAGU-GCC-CGCUCGG---------------CGGGC- -5'
26135 3' -62.9 NC_005342.2 + 41834 0.67 0.296609
Target:  5'- cUCGUacgaGUCGCuuucGGCGAGCaCGCCCc -3'
miRNA:   3'- cAGCAgg--CAGUGc---CCGCUCG-GCGGGc -5'
26135 3' -62.9 NC_005342.2 + 41155 0.67 0.296609
Target:  5'- -cUGcUCGaCGCGGGCGAGUCGgCCGu -3'
miRNA:   3'- caGCaGGCaGUGCCCGCUCGGCgGGC- -5'
26135 3' -62.9 NC_005342.2 + 11039 0.67 0.289631
Target:  5'- cUCGaCCG-C-CGGGCGuGCgGCCCa -3'
miRNA:   3'- cAGCaGGCaGuGCCCGCuCGgCGGGc -5'
26135 3' -62.9 NC_005342.2 + 17196 0.67 0.289631
Target:  5'- ----aUCGUCGCGGGCGAccacuGCCGCUa- -3'
miRNA:   3'- cagcaGGCAGUGCCCGCU-----CGGCGGgc -5'
26135 3' -62.9 NC_005342.2 + 23817 0.67 0.289631
Target:  5'- -aCGaCuCGUCGCGuGuCGAGCUGCCCGu -3'
miRNA:   3'- caGCaG-GCAGUGCcC-GCUCGGCGGGC- -5'
26135 3' -62.9 NC_005342.2 + 9291 0.67 0.289631
Target:  5'- -aUG-CCG-CACGcGGCGAGgCGCCCc -3'
miRNA:   3'- caGCaGGCaGUGC-CCGCUCgGCGGGc -5'
26135 3' -62.9 NC_005342.2 + 29172 0.67 0.282783
Target:  5'- -cCGUCUGcuUCGCcGGCaacGAGCCGCUCGa -3'
miRNA:   3'- caGCAGGC--AGUGcCCG---CUCGGCGGGC- -5'
26135 3' -62.9 NC_005342.2 + 25376 0.67 0.276063
Target:  5'- cGUCGcggCCGUCGCcGGCGu-CgGCCCGg -3'
miRNA:   3'- -CAGCa--GGCAGUGcCCGCucGgCGGGC- -5'
26135 3' -62.9 NC_005342.2 + 2426 0.67 0.276063
Target:  5'- -cCGgcgCCGUCAUGGGCuacGCCGCgUCGa -3'
miRNA:   3'- caGCa--GGCAGUGCCCGcu-CGGCG-GGC- -5'
26135 3' -62.9 NC_005342.2 + 47175 0.67 0.269472
Target:  5'- cGUCG-CCGcUCGCGGGCGccaauCCGUUCGa -3'
miRNA:   3'- -CAGCaGGC-AGUGCCCGCuc---GGCGGGC- -5'
26135 3' -62.9 NC_005342.2 + 21013 0.68 0.244372
Target:  5'- -gCGUCCGgcccCGuGGCGuAGCCGCCgGg -3'
miRNA:   3'- caGCAGGCagu-GC-CCGC-UCGGCGGgC- -5'
26135 3' -62.9 NC_005342.2 + 2709 0.68 0.232566
Target:  5'- uUCGUgcCCGUCACGGccgagauuGCG-GCCGCCg- -3'
miRNA:   3'- cAGCA--GGCAGUGCC--------CGCuCGGCGGgc -5'
26135 3' -62.9 NC_005342.2 + 28487 0.68 0.232566
Target:  5'- cGUCGaCCG-CGCGGGuCGcggcggcgcGGCUGCCCa -3'
miRNA:   3'- -CAGCaGGCaGUGCCC-GC---------UCGGCGGGc -5'
26135 3' -62.9 NC_005342.2 + 26182 0.69 0.209866
Target:  5'- cUCGUCCuGcUUGCGGGCGGcuaccccgaagucGCCuGCCCGa -3'
miRNA:   3'- cAGCAGG-C-AGUGCCCGCU-------------CGG-CGGGC- -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.