miRNA display CGI


Results 1 - 20 of 28 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
12835 3' -50.5 NC_003387.1 + 18221 0.66 0.933358
Target:  5'- gCG-GCGCCGCa-GCGGCGGgcGUa-- -3'
miRNA:   3'- -GCaCGUGGUGcaUGCCGCCaaUAaag -5'
12835 3' -50.5 NC_003387.1 + 48437 0.66 0.933358
Target:  5'- --aGCACCGCGUGCaGUucaucgagGGUUAcgUCg -3'
miRNA:   3'- gcaCGUGGUGCAUGcCG--------CCAAUaaAG- -5'
12835 3' -50.5 NC_003387.1 + 24920 0.66 0.933358
Target:  5'- aGUGCguugugaccGCCGCGaccgACGGCGGg------ -3'
miRNA:   3'- gCACG---------UGGUGCa---UGCCGCCaauaaag -5'
12835 3' -50.5 NC_003387.1 + 48728 0.66 0.932798
Target:  5'- cCGUGCGCCGCG-ACGaguccaugaccgcGCGGg----UCg -3'
miRNA:   3'- -GCACGUGGUGCaUGC-------------CGCCaauaaAG- -5'
12835 3' -50.5 NC_003387.1 + 741 0.66 0.927621
Target:  5'- gGUGCGCCAgGaUGCGGuCGGc------ -3'
miRNA:   3'- gCACGUGGUgC-AUGCC-GCCaauaaag -5'
12835 3' -50.5 NC_003387.1 + 22093 0.66 0.927621
Target:  5'- gCGUGgGgCACGUACGGCGc------- -3'
miRNA:   3'- -GCACgUgGUGCAUGCCGCcaauaaag -5'
12835 3' -50.5 NC_003387.1 + 46470 0.66 0.927621
Target:  5'- uCGUGCACCGgGaugaugACGGCG---AUUUCc -3'
miRNA:   3'- -GCACGUGGUgCa-----UGCCGCcaaUAAAG- -5'
12835 3' -50.5 NC_003387.1 + 32991 0.66 0.921588
Target:  5'- aCGUGC-CCGCGUuCGaGCGGg------ -3'
miRNA:   3'- -GCACGuGGUGCAuGC-CGCCaauaaag -5'
12835 3' -50.5 NC_003387.1 + 42230 0.66 0.921588
Target:  5'- --cGCACCGCG-AUGGgcgaGGUUGUgUCg -3'
miRNA:   3'- gcaCGUGGUGCaUGCCg---CCAAUAaAG- -5'
12835 3' -50.5 NC_003387.1 + 10932 0.66 0.921588
Target:  5'- gCGUGCGCCAgGUcGCGGCa-------- -3'
miRNA:   3'- -GCACGUGGUgCA-UGCCGccaauaaag -5'
12835 3' -50.5 NC_003387.1 + 35851 0.66 0.921588
Target:  5'- uCGUGCAUCgccuggGCGUGCGGCGc------- -3'
miRNA:   3'- -GCACGUGG------UGCAUGCCGCcaauaaag -5'
12835 3' -50.5 NC_003387.1 + 17175 0.66 0.915259
Target:  5'- gGUGCGCCGCcuggGCGGCGa------- -3'
miRNA:   3'- gCACGUGGUGca--UGCCGCcaauaaag -5'
12835 3' -50.5 NC_003387.1 + 51353 0.67 0.90172
Target:  5'- -uUGCGCCAC-UGCGaGCGGUcg--UCg -3'
miRNA:   3'- gcACGUGGUGcAUGC-CGCCAauaaAG- -5'
12835 3' -50.5 NC_003387.1 + 14517 0.67 0.894517
Target:  5'- gGUGCGCCuGCGUGCGGUa-------- -3'
miRNA:   3'- gCACGUGG-UGCAUGCCGccaauaaag -5'
12835 3' -50.5 NC_003387.1 + 30870 0.67 0.879263
Target:  5'- gCGUcgGCACCugGUGCGcCGGUg---UCc -3'
miRNA:   3'- -GCA--CGUGGugCAUGCcGCCAauaaAG- -5'
12835 3' -50.5 NC_003387.1 + 42746 0.67 0.871223
Target:  5'- gGUGCGCC-C-UGCGGCGGa------ -3'
miRNA:   3'- gCACGUGGuGcAUGCCGCCaauaaag -5'
12835 3' -50.5 NC_003387.1 + 39060 0.67 0.870405
Target:  5'- uCGUGCuuacucacgguugACCACGUcGCGGuCGGgccgUUCg -3'
miRNA:   3'- -GCACG-------------UGGUGCA-UGCC-GCCaauaAAG- -5'
12835 3' -50.5 NC_003387.1 + 32838 0.68 0.862919
Target:  5'- --cGCACCGCGgggcGgGGCGGUUccgcgUCg -3'
miRNA:   3'- gcaCGUGGUGCa---UgCCGCCAAuaa--AG- -5'
12835 3' -50.5 NC_003387.1 + 2470 0.68 0.854356
Target:  5'- gGUGCACCgcccggcgcugACGUACGGCGccucgUAUg-- -3'
miRNA:   3'- gCACGUGG-----------UGCAUGCCGCca---AUAaag -5'
12835 3' -50.5 NC_003387.1 + 38074 0.68 0.854356
Target:  5'- --aGCGCCGCGUcacugugcGCGGCGGc------ -3'
miRNA:   3'- gcaCGUGGUGCA--------UGCCGCCaauaaag -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.