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
12177 3' -59.6 NC_003309.1 + 47746 0.66 0.476935
Target:  5'- uCGCCUcGCCugGGCCG-GCCGCc--- -3'
miRNA:   3'- -GCGGGaCGGugCUGGUgUGGCGcauu -5'
12177 3' -59.6 NC_003309.1 + 47612 0.68 0.325215
Target:  5'- aCGUCCUGCC-CGGUCGuCGCCGCGc-- -3'
miRNA:   3'- -GCGGGACGGuGCUGGU-GUGGCGCauu -5'
12177 3' -59.6 NC_003309.1 + 45101 1.06 0.000563
Target:  5'- aCGCCCUGCCACGACCACACCGCGUAAc -3'
miRNA:   3'- -GCGGGACGGUGCUGGUGUGGCGCAUU- -5'
12177 3' -59.6 NC_003309.1 + 44185 0.66 0.467033
Target:  5'- aCGCCCgcgGCgCGCuGCCGCuCgGCGUAc -3'
miRNA:   3'- -GCGGGa--CG-GUGcUGGUGuGgCGCAUu -5'
12177 3' -59.6 NC_003309.1 + 43450 0.78 0.077393
Target:  5'- aGCCaUGCCGCGcaGCCGCGCCGCGa-- -3'
miRNA:   3'- gCGGgACGGUGC--UGGUGUGGCGCauu -5'
12177 3' -59.6 NC_003309.1 + 43317 0.66 0.467033
Target:  5'- gGCCgUGCguCGACCACGCCuuGCc--- -3'
miRNA:   3'- gCGGgACGguGCUGGUGUGG--CGcauu -5'
12177 3' -59.6 NC_003309.1 + 33273 0.69 0.317489
Target:  5'- cCGCgCUGCacgacgugAUGACCACGCUGUGUGc -3'
miRNA:   3'- -GCGgGACGg-------UGCUGGUGUGGCGCAUu -5'
12177 3' -59.6 NC_003309.1 + 29823 0.68 0.333079
Target:  5'- aCGCauuUUGCCGCGAuCCGCAgCGCGa-- -3'
miRNA:   3'- -GCGg--GACGGUGCU-GGUGUgGCGCauu -5'
12177 3' -59.6 NC_003309.1 + 20243 0.66 0.466048
Target:  5'- cCGCCCUGCaCGacgaacggcgcacCGAUCACACCGg---- -3'
miRNA:   3'- -GCGGGACG-GU-------------GCUGGUGUGGCgcauu -5'
12177 3' -59.6 NC_003309.1 + 17703 0.68 0.333079
Target:  5'- uCGUCUUGCCGucgaacgcacCGGCCAgCACCuGCGUAu -3'
miRNA:   3'- -GCGGGACGGU----------GCUGGU-GUGG-CGCAUu -5'
12177 3' -59.6 NC_003309.1 + 17258 0.66 0.428534
Target:  5'- uCGCUgCUGCCACcACCAcCGCCGCc--- -3'
miRNA:   3'- -GCGG-GACGGUGcUGGU-GUGGCGcauu -5'
12177 3' -59.6 NC_003309.1 + 13102 0.7 0.254171
Target:  5'- aCGCCCgGCUGCGACaC-CACUGCGg-- -3'
miRNA:   3'- -GCGGGaCGGUGCUG-GuGUGGCGCauu -5'
12177 3' -59.6 NC_003309.1 + 11990 0.76 0.0942
Target:  5'- uGCCCgcgcgcggcaGCCGCGGCgCGCGCCGCGUc- -3'
miRNA:   3'- gCGGGa---------CGGUGCUG-GUGUGGCGCAuu -5'
12177 3' -59.6 NC_003309.1 + 10902 0.69 0.295146
Target:  5'- aGCCCcGCCGCGGUCGCggucGCCGCGc-- -3'
miRNA:   3'- gCGGGaCGGUGCUGGUG----UGGCGCauu -5'
12177 3' -59.6 NC_003309.1 + 10250 0.68 0.365918
Target:  5'- cCGCCCaGCCGCGAgcgaCACGCCGa---- -3'
miRNA:   3'- -GCGGGaCGGUGCUg---GUGUGGCgcauu -5'
12177 3' -59.6 NC_003309.1 + 9186 0.71 0.223696
Target:  5'- aCGCCgCcGCCGCGAUCAuCGCCGCa--- -3'
miRNA:   3'- -GCGG-GaCGGUGCUGGU-GUGGCGcauu -5'
12177 3' -59.6 NC_003309.1 + 9063 0.68 0.333079
Target:  5'- aCGUCUUGCCAa-GCCGCAgCGCGa-- -3'
miRNA:   3'- -GCGGGACGGUgcUGGUGUgGCGCauu -5'
12177 3' -59.6 NC_003309.1 + 6524 0.7 0.254171
Target:  5'- aGCCUUGCUcuCGGCCGCuuGCCGCGc-- -3'
miRNA:   3'- gCGGGACGGu-GCUGGUG--UGGCGCauu -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.