miRNA display CGI


Results 1 - 18 of 18 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
28073 5' -53.4 NC_005887.1 + 6042 0.66 0.764788
Target:  5'- uCCGGGUgGUGCUgGUGgCAGCg---- -3'
miRNA:   3'- -GGCCUAgUACGGgCACgGUUGgaaag -5'
28073 5' -53.4 NC_005887.1 + 33941 0.66 0.754212
Target:  5'- gCCuGGUCGUGCUCG-GCCcacgcGCCUUgUCg -3'
miRNA:   3'- -GGcCUAGUACGGGCaCGGu----UGGAA-AG- -5'
28073 5' -53.4 NC_005887.1 + 24920 0.66 0.754212
Target:  5'- gCCGGAUCG-GCaCCGuUGUCGAUCg--- -3'
miRNA:   3'- -GGCCUAGUaCG-GGC-ACGGUUGGaaag -5'
28073 5' -53.4 NC_005887.1 + 9836 0.66 0.754212
Target:  5'- gCCGG-UCA-GCgCG-GCCAACCUg-- -3'
miRNA:   3'- -GGCCuAGUaCGgGCaCGGUUGGAaag -5'
28073 5' -53.4 NC_005887.1 + 10440 0.66 0.743503
Target:  5'- cCCGGAUCuugcagcagcAUGCCUGaccgGCUGGCCg--- -3'
miRNA:   3'- -GGCCUAG----------UACGGGCa---CGGUUGGaaag -5'
28073 5' -53.4 NC_005887.1 + 14136 0.66 0.743502
Target:  5'- aCCaGAUCgauGUGCCCGaGCCGACgg-UCu -3'
miRNA:   3'- -GGcCUAG---UACGGGCaCGGUUGgaaAG- -5'
28073 5' -53.4 NC_005887.1 + 16122 0.67 0.699593
Target:  5'- gCGGAUCGgaCCCGUgcGCCAGCUg--- -3'
miRNA:   3'- gGCCUAGUacGGGCA--CGGUUGGaaag -5'
28073 5' -53.4 NC_005887.1 + 41209 0.68 0.643223
Target:  5'- cCCGcGcgucGUCGUGCCCGUGaCCGAgCUc-- -3'
miRNA:   3'- -GGC-C----UAGUACGGGCAC-GGUUgGAaag -5'
28073 5' -53.4 NC_005887.1 + 36171 0.68 0.631871
Target:  5'- gCGGcgCGU-CaCCGUGCCGACCg--- -3'
miRNA:   3'- gGCCuaGUAcG-GGCACGGUUGGaaag -5'
28073 5' -53.4 NC_005887.1 + 26812 0.68 0.62052
Target:  5'- gCCGaGUCGUcGCCCGUGaCgAACCUcgCg -3'
miRNA:   3'- -GGCcUAGUA-CGGGCAC-GgUUGGAaaG- -5'
28073 5' -53.4 NC_005887.1 + 1453 0.68 0.609178
Target:  5'- uCCGGAUCAUgugcgagcaggaGCCCGacGCCGACg---- -3'
miRNA:   3'- -GGCCUAGUA------------CGGGCa-CGGUUGgaaag -5'
28073 5' -53.4 NC_005887.1 + 31318 0.69 0.586569
Target:  5'- aCCGGugGUCAcGUCCcacGUGCCGACCgggccgUCg -3'
miRNA:   3'- -GGCC--UAGUaCGGG---CACGGUUGGaa----AG- -5'
28073 5' -53.4 NC_005887.1 + 1288 0.7 0.519993
Target:  5'- gCGGAUCGUGUCCuucGCCAugUUcUCg -3'
miRNA:   3'- gGCCUAGUACGGGca-CGGUugGAaAG- -5'
28073 5' -53.4 NC_005887.1 + 32530 0.7 0.519993
Target:  5'- aCGGcauAUCcgGCCacguGUGCCAGgCUUUCa -3'
miRNA:   3'- gGCC---UAGuaCGGg---CACGGUUgGAAAG- -5'
28073 5' -53.4 NC_005887.1 + 28513 0.72 0.379017
Target:  5'- aCGGGgauuUCGUGCCCGUucGCCAACaCgcugUCg -3'
miRNA:   3'- gGCCU----AGUACGGGCA--CGGUUG-Gaa--AG- -5'
28073 5' -53.4 NC_005887.1 + 15875 0.75 0.280345
Target:  5'- gCCGG--CAUGCCCGUGCUcguGGCCUa-- -3'
miRNA:   3'- -GGCCuaGUACGGGCACGG---UUGGAaag -5'
28073 5' -53.4 NC_005887.1 + 28837 0.76 0.23919
Target:  5'- gUGGcgcgCAUGCCCGUGCCGgcgACCUcgUCg -3'
miRNA:   3'- gGCCua--GUACGGGCACGGU---UGGAa-AG- -5'
28073 5' -53.4 NC_005887.1 + 10089 1.12 0.000686
Target:  5'- aCCGGAUCAUGCCCGUGCCAACCUUUCu -3'
miRNA:   3'- -GGCCUAGUACGGGCACGGUUGGAAAG- -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.