miRNA display CGI


Results 1 - 20 of 32 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
28021 3' -64.9 NC_005887.1 + 40690 0.66 0.260529
Target:  5'- uGGCGcGCGCGCaCGGCug--GCaGGAGc -3'
miRNA:   3'- gCCGC-CGCGCG-GCCGccaaCG-CCUCc -5'
28021 3' -64.9 NC_005887.1 + 25495 0.66 0.230492
Target:  5'- gCGGCGGCucggacgaugGCG-CGGCGGgugGCGGc-- -3'
miRNA:   3'- -GCCGCCG----------CGCgGCCGCCaa-CGCCucc -5'
28021 3' -64.9 NC_005887.1 + 35075 0.66 0.232783
Target:  5'- uCGGCgGGCGCGaCUucgaagucgucuucgGGCGGUUGaauuucGAGGg -3'
miRNA:   3'- -GCCG-CCGCGC-GG---------------CCGCCAACgc----CUCC- -5'
28021 3' -64.9 NC_005887.1 + 41609 0.66 0.242141
Target:  5'- gGuGCGGCG-GCCGGCGcGgccCGuGAGGa -3'
miRNA:   3'- gC-CGCCGCgCGGCCGC-CaacGC-CUCC- -5'
28021 3' -64.9 NC_005887.1 + 22262 0.66 0.242141
Target:  5'- aCGGUGGCGCGCagcaGGCGau--CGGAu- -3'
miRNA:   3'- -GCCGCCGCGCGg---CCGCcaacGCCUcc -5'
28021 3' -64.9 NC_005887.1 + 31391 0.66 0.247541
Target:  5'- uCGGCGuagcgguGCGUGCC-GUGGUUcaGCGGGGu -3'
miRNA:   3'- -GCCGC-------CGCGCGGcCGCCAA--CGCCUCc -5'
28021 3' -64.9 NC_005887.1 + 30947 0.66 0.248147
Target:  5'- uCGGCGGUGaUGUCGGCGcccGCGuacguGAGGa -3'
miRNA:   3'- -GCCGCCGC-GCGGCCGCcaaCGC-----CUCC- -5'
28021 3' -64.9 NC_005887.1 + 28502 0.66 0.248147
Target:  5'- ----cGCGCGCCGGCGGgaagaugacgaUGCGGucAGGc -3'
miRNA:   3'- gccgcCGCGCGGCCGCCa----------ACGCC--UCC- -5'
28021 3' -64.9 NC_005887.1 + 13372 0.66 0.254276
Target:  5'- cCGGCgauGGCGCucgcgcugaagGCCGGCGcg-GCGGAc- -3'
miRNA:   3'- -GCCG---CCGCG-----------CGGCCGCcaaCGCCUcc -5'
28021 3' -64.9 NC_005887.1 + 38997 0.67 0.227091
Target:  5'- uGGCGGauuguuucgugccacCGCGCagucgaCGGCGGcuugcUGCGGAGu -3'
miRNA:   3'- gCCGCC---------------GCGCG------GCCGCCa----ACGCCUCc -5'
28021 3' -64.9 NC_005887.1 + 32762 0.67 0.219319
Target:  5'- cCGGCGcGCGCcaugcaGCCGGCucgUGCGcAGGa -3'
miRNA:   3'- -GCCGC-CGCG------CGGCCGccaACGCcUCC- -5'
28021 3' -64.9 NC_005887.1 + 4399 0.68 0.188549
Target:  5'- aGGCaauGCGCGCCGGCGaaGgcGCGGcGa -3'
miRNA:   3'- gCCGc--CGCGCGGCCGC--CaaCGCCuCc -5'
28021 3' -64.9 NC_005887.1 + 18552 0.71 0.106059
Target:  5'- gGGCGGCgGCGCCGGCuuc-GCGGGc- -3'
miRNA:   3'- gCCGCCG-CGCGGCCGccaaCGCCUcc -5'
28021 3' -64.9 NC_005887.1 + 32425 0.71 0.114894
Target:  5'- cCGGCGGCGaugugGCCGGCGGcgaucaggUUGCGcAGc -3'
miRNA:   3'- -GCCGCCGCg----CGGCCGCC--------AACGCcUCc -5'
28021 3' -64.9 NC_005887.1 + 5813 0.7 0.124412
Target:  5'- aCGGCGGCGaucgaGUCGGCgcgGGUcGCGaAGGg -3'
miRNA:   3'- -GCCGCCGCg----CGGCCG---CCAaCGCcUCC- -5'
28021 3' -64.9 NC_005887.1 + 1489 0.69 0.161641
Target:  5'- gCGuGCGGCGCucGCgCGGCGcGgccgUGCGGAa- -3'
miRNA:   3'- -GC-CGCCGCG--CG-GCCGC-Ca---ACGCCUcc -5'
28021 3' -64.9 NC_005887.1 + 25020 0.69 0.161641
Target:  5'- cCGGCGGC-CGCCGGCcagccGGUaGCGcAGa -3'
miRNA:   3'- -GCCGCCGcGCGGCCG-----CCAaCGCcUCc -5'
28021 3' -64.9 NC_005887.1 + 14541 0.68 0.169329
Target:  5'- uCGGCGGCGCGUCGaucggcaugucgcgcGCGGaagaccugaaacgGCaGGGGGu -3'
miRNA:   3'- -GCCGCCGCGCGGC---------------CGCCaa-----------CG-CCUCC- -5'
28021 3' -64.9 NC_005887.1 + 23252 0.68 0.18101
Target:  5'- gCGGuCGGCGCGCaaaaggcgcagcucgUGGCGGUUGCc---- -3'
miRNA:   3'- -GCC-GCCGCGCG---------------GCCGCCAACGccucc -5'
28021 3' -64.9 NC_005887.1 + 3875 0.68 0.18569
Target:  5'- aCGGCGGCaGC-CCGGCauacgacgccaugccGGaugUGCGGAuGGc -3'
miRNA:   3'- -GCCGCCG-CGcGGCCG---------------CCa--ACGCCU-CC- -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.