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 + 741 0.66 0.927621
Target:  5'- gGUGCGCCAgGaUGCGGuCGGc------ -3'
miRNA:   3'- gCACGUGGUgC-AUGCC-GCCaauaaag -5'
12835 3' -50.5 NC_003387.1 + 2368 0.69 0.787996
Target:  5'- --aGCGCCACGUAC-GCGGUc----- -3'
miRNA:   3'- gcaCGUGGUGCAUGcCGCCAauaaag -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 + 10932 0.66 0.921588
Target:  5'- gCGUGCGCCAgGUcGCGGCa-------- -3'
miRNA:   3'- -GCACGUGGUgCA-UGCCGccaauaaag -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 + 17175 0.66 0.915259
Target:  5'- gGUGCGCCGCcuggGCGGCGa------- -3'
miRNA:   3'- gCACGUGGUGca--UGCCGCcaauaaag -5'
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 + 20347 0.71 0.713173
Target:  5'- uGUGUcggccagcccccGCCuCGUGCGGgGGUUGUgUCg -3'
miRNA:   3'- gCACG------------UGGuGCAUGCCgCCAAUAaAG- -5'
12835 3' -50.5 NC_003387.1 + 21907 1.11 0.002184
Target:  5'- uCGUGCACCACGUACGGCGGUUAUUUCg -3'
miRNA:   3'- -GCACGUGGUGCAUGCCGCCAAUAAAG- -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 + 23966 0.71 0.70204
Target:  5'- aCGUGCGCaGCGccggGCGGCuGGUUGUg-- -3'
miRNA:   3'- -GCACGUGgUGCa---UGCCG-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 + 30870 0.67 0.879263
Target:  5'- gCGUcgGCACCugGUGCGcCGGUg---UCc -3'
miRNA:   3'- -GCA--CGUGGugCAUGCcGCCAauaaAG- -5'
12835 3' -50.5 NC_003387.1 + 31024 0.7 0.72422
Target:  5'- gCGUGCGCCGgG-GCGGCGGc------ -3'
miRNA:   3'- -GCACGUGGUgCaUGCCGCCaauaaag -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 + 32991 0.66 0.921588
Target:  5'- aCGUGC-CCGCGUuCGaGCGGg------ -3'
miRNA:   3'- -GCACGuGGUGCAuGC-CGCCaauaaag -5'
12835 3' -50.5 NC_003387.1 + 34208 0.69 0.777728
Target:  5'- --aGCGCCACGUcGCGGuCGGUg----- -3'
miRNA:   3'- gcaCGUGGUGCA-UGCC-GCCAauaaag -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 + 37741 0.75 0.478893
Target:  5'- uGUGCGCCAcCGUgcGCGGCGGg------ -3'
miRNA:   3'- gCACGUGGU-GCA--UGCCGCCaauaaag -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.