miRNA display CGI


Results 1 - 20 of 22 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
16329 3' -58.4 NC_004084.1 + 16921 0.66 0.572344
Target:  5'- -cGCCAGCggcaUCCGCGaucgUCUUC-CGUUCu -3'
miRNA:   3'- acCGGUCGa---AGGCGC----AGAGGaGCAGG- -5'
16329 3' -58.4 NC_004084.1 + 48722 0.66 0.572344
Target:  5'- cGGCCAaCUcaCCGCgGUCUCCggCGggCCa -3'
miRNA:   3'- aCCGGUcGAa-GGCG-CAGAGGa-GCa-GG- -5'
16329 3' -58.4 NC_004084.1 + 3079 0.66 0.551307
Target:  5'- gGGCCGcucgucgacguGCgUUCCgGCGggCUCCUCaUCCa -3'
miRNA:   3'- aCCGGU-----------CG-AAGG-CGCa-GAGGAGcAGG- -5'
16329 3' -58.4 NC_004084.1 + 47421 0.66 0.551307
Target:  5'- -aGUCGGCUccucgucagCCGCaUCUCCUCcaGUCCa -3'
miRNA:   3'- acCGGUCGAa--------GGCGcAGAGGAG--CAGG- -5'
16329 3' -58.4 NC_004084.1 + 2237 0.66 0.551307
Target:  5'- cGGCCAGCg--CGgaGaUCUCCUCGgucuugCCg -3'
miRNA:   3'- aCCGGUCGaagGCg-C-AGAGGAGCa-----GG- -5'
16329 3' -58.4 NC_004084.1 + 54345 0.67 0.49988
Target:  5'- cGaUCAGgUUCCGCaUCUCCUCGcgCCc -3'
miRNA:   3'- aCcGGUCgAAGGCGcAGAGGAGCa-GG- -5'
16329 3' -58.4 NC_004084.1 + 2444 0.67 0.49988
Target:  5'- cGGCgauCAGCcccUCCGCGUCgCCgUCGUaCCc -3'
miRNA:   3'- aCCG---GUCGa--AGGCGCAGaGG-AGCA-GG- -5'
16329 3' -58.4 NC_004084.1 + 13912 0.67 0.489843
Target:  5'- gGGCgAccGCUU-CGCGgaaCUCCUCGUCa -3'
miRNA:   3'- aCCGgU--CGAAgGCGCa--GAGGAGCAGg -5'
16329 3' -58.4 NC_004084.1 + 2344 0.68 0.470058
Target:  5'- -cGCCAGagucgucgUUCCGCGUCgUCCUCGa-- -3'
miRNA:   3'- acCGGUCg-------AAGGCGCAG-AGGAGCagg -5'
16329 3' -58.4 NC_004084.1 + 47978 0.68 0.470058
Target:  5'- -cGCgGGCUUCCGgGauguUgUUCUCGUCCu -3'
miRNA:   3'- acCGgUCGAAGGCgC----AgAGGAGCAGG- -5'
16329 3' -58.4 NC_004084.1 + 55073 0.68 0.460319
Target:  5'- gUGGCCGGCg--CGCucCUCCccCGUCCg -3'
miRNA:   3'- -ACCGGUCGaagGCGcaGAGGa-GCAGG- -5'
16329 3' -58.4 NC_004084.1 + 51748 0.68 0.430832
Target:  5'- -uGCCAGCUUCgugGCGUCgucgggcUCUUCGUCg -3'
miRNA:   3'- acCGGUCGAAGg--CGCAG-------AGGAGCAGg -5'
16329 3' -58.4 NC_004084.1 + 49338 0.69 0.42248
Target:  5'- cGGUCGGCguaCCGCGgcgaUCUCCgaaCGuUCCa -3'
miRNA:   3'- aCCGGUCGaa-GGCGC----AGAGGa--GC-AGG- -5'
16329 3' -58.4 NC_004084.1 + 1637 0.69 0.42248
Target:  5'- aGGCCgaccGGCUUCUGCGUggggUgCUCGUUCc -3'
miRNA:   3'- aCCGG----UCGAAGGCGCAg---AgGAGCAGG- -5'
16329 3' -58.4 NC_004084.1 + 35321 0.69 0.413316
Target:  5'- cGGCUGGCUaUCCGagGUCgCCgaCGUCCa -3'
miRNA:   3'- aCCGGUCGA-AGGCg-CAGaGGa-GCAGG- -5'
16329 3' -58.4 NC_004084.1 + 47367 0.69 0.413316
Target:  5'- cGGCUGGU-UCUGCGUCUCC-CaGUCg -3'
miRNA:   3'- aCCGGUCGaAGGCGCAGAGGaG-CAGg -5'
16329 3' -58.4 NC_004084.1 + 58280 0.7 0.368543
Target:  5'- cUGGCUgcgGGCgcUCUGCGgacgaggUCUCCUCcGUCCa -3'
miRNA:   3'- -ACCGG---UCGa-AGGCGC-------AGAGGAG-CAGG- -5'
16329 3' -58.4 NC_004084.1 + 57046 0.7 0.360995
Target:  5'- cGGCC-GCUUUCGCGUC-CCgaucacgacgGUCCg -3'
miRNA:   3'- aCCGGuCGAAGGCGCAGaGGag--------CAGG- -5'
16329 3' -58.4 NC_004084.1 + 49504 0.72 0.257055
Target:  5'- cGGaucgucuUCGGCUUCCGC--CUCUUCGUCCg -3'
miRNA:   3'- aCC-------GGUCGAAGGCGcaGAGGAGCAGG- -5'
16329 3' -58.4 NC_004084.1 + 50495 0.76 0.149347
Target:  5'- gGGUCGGgaUCCGCGUCuUCUUCGcgCCg -3'
miRNA:   3'- aCCGGUCgaAGGCGCAG-AGGAGCa-GG- -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.