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
18349 3' -58.8 NC_004681.1 + 17292 0.66 0.636312
Target:  5'- aGAcGACGcccuGCUGgCGCGCGUGCccGCGg -3'
miRNA:   3'- gCUaCUGU----CGACaGCGCGCGCG--CGCa -5'
18349 3' -58.8 NC_004681.1 + 31385 0.66 0.636312
Target:  5'- aCGGUGAgGGCUacgGgGCGCGCGaCGg -3'
miRNA:   3'- -GCUACUgUCGAcagCgCGCGCGC-GCa -5'
18349 3' -58.8 NC_004681.1 + 33489 0.66 0.615295
Target:  5'- cCGAUGcgguuCAGgUGccacacggCGCGCGCGaCGCGg -3'
miRNA:   3'- -GCUACu----GUCgACa-------GCGCGCGC-GCGCa -5'
18349 3' -58.8 NC_004681.1 + 42925 0.66 0.615295
Target:  5'- cCGGUGGCGGCUG-CGaaCGCuGCGC-CGa -3'
miRNA:   3'- -GCUACUGUCGACaGC--GCG-CGCGcGCa -5'
18349 3' -58.8 NC_004681.1 + 67820 0.66 0.615295
Target:  5'- -uAUGACAGC-GUCGUGCGUcaucucCGCGg -3'
miRNA:   3'- gcUACUGUCGaCAGCGCGCGc-----GCGCa -5'
18349 3' -58.8 NC_004681.1 + 13119 0.66 0.603754
Target:  5'- gCGAUGACAGUgucaGUCGCGgccacguCGUcCGCGg -3'
miRNA:   3'- -GCUACUGUCGa---CAGCGC-------GCGcGCGCa -5'
18349 3' -58.8 NC_004681.1 + 42436 0.66 0.593285
Target:  5'- uGGUGGCAuuggagcGCUG-CGCGUGgGCGgGg -3'
miRNA:   3'- gCUACUGU-------CGACaGCGCGCgCGCgCa -5'
18349 3' -58.8 NC_004681.1 + 44419 0.67 0.583889
Target:  5'- gGGUGugGGa---CGCGCGCGCccaGCGUg -3'
miRNA:   3'- gCUACugUCgacaGCGCGCGCG---CGCA- -5'
18349 3' -58.8 NC_004681.1 + 44692 0.67 0.552811
Target:  5'- aCGgcGACGGCggcGUCaCGCGCaccaaGCGCGUc -3'
miRNA:   3'- -GCuaCUGUCGa--CAGcGCGCG-----CGCGCA- -5'
18349 3' -58.8 NC_004681.1 + 3730 0.67 0.542558
Target:  5'- gCGAgGGCGGCcugcuucuUGUCGCGgGCGaCGcCGUa -3'
miRNA:   3'- -GCUaCUGUCG--------ACAGCGCgCGC-GC-GCA- -5'
18349 3' -58.8 NC_004681.1 + 11837 0.67 0.541536
Target:  5'- uCGAcgGACgacaccaagauuuGGCaGUCGCgGCGCGCGCa- -3'
miRNA:   3'- -GCUa-CUG-------------UCGaCAGCG-CGCGCGCGca -5'
18349 3' -58.8 NC_004681.1 + 10666 0.68 0.522248
Target:  5'- cCGGUGcccGCGGCcGUCGCGUGCaagGCGgGa -3'
miRNA:   3'- -GCUAC---UGUCGaCAGCGCGCG---CGCgCa -5'
18349 3' -58.8 NC_004681.1 + 33367 0.69 0.425973
Target:  5'- uGA-GAcCGGCcgcGUCGCGCGCGcCGUGUg -3'
miRNA:   3'- gCUaCU-GUCGa--CAGCGCGCGC-GCGCA- -5'
18349 3' -58.8 NC_004681.1 + 45033 0.69 0.425973
Target:  5'- gCGGUGGCGGCUccacCGCGUGgGgGCGa -3'
miRNA:   3'- -GCUACUGUCGAca--GCGCGCgCgCGCa -5'
18349 3' -58.8 NC_004681.1 + 2167 0.69 0.416927
Target:  5'- uGAUGAuccCAGC-GUCGCgGCGCaguGCGCGg -3'
miRNA:   3'- gCUACU---GUCGaCAGCG-CGCG---CGCGCa -5'
18349 3' -58.8 NC_004681.1 + 34351 0.7 0.390508
Target:  5'- ---cGGCGGCgugaggGUUGUGCGCGCuGCGg -3'
miRNA:   3'- gcuaCUGUCGa-----CAGCGCGCGCG-CGCa -5'
18349 3' -58.8 NC_004681.1 + 46871 0.7 0.381948
Target:  5'- gGAUGACcGUgacGcCGUGCGCGCGCa- -3'
miRNA:   3'- gCUACUGuCGa--CaGCGCGCGCGCGca -5'
18349 3' -58.8 NC_004681.1 + 57440 0.71 0.318089
Target:  5'- gGAUGGCcaAGUUGUCugGCGUuaGCGCGCGg -3'
miRNA:   3'- gCUACUG--UCGACAG--CGCG--CGCGCGCa -5'
18349 3' -58.8 NC_004681.1 + 61855 0.72 0.310695
Target:  5'- cCGAUGGCGGCcgcggucugGUgGCGCGCGaggGCGg -3'
miRNA:   3'- -GCUACUGUCGa--------CAgCGCGCGCg--CGCa -5'
18349 3' -58.8 NC_004681.1 + 11970 0.72 0.281752
Target:  5'- uCGGUGACGucgguacGCUG-CGCGCGC-CGCGa -3'
miRNA:   3'- -GCUACUGU-------CGACaGCGCGCGcGCGCa -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.