miRNA display CGI


Results 1 - 20 of 21 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
18823 3' -61.5 NC_004683.1 + 48026 0.66 0.405685
Target:  5'- gCCGaugAGGUGGC-GCCGgCCcaGGCGGa -3'
miRNA:   3'- gGGU---UCCACCGaCGGC-GGcaCCGCUa -5'
18823 3' -61.5 NC_004683.1 + 13898 0.66 0.403015
Target:  5'- aCUCGAGGUugaucggcuggccgGGCUGCUGCUGgcccGGCuGAc -3'
miRNA:   3'- -GGGUUCCA--------------CCGACGGCGGCa---CCG-CUa -5'
18823 3' -61.5 NC_004683.1 + 49444 0.66 0.396826
Target:  5'- aUCCGGGGcaggugcaggGGCaccgGCCGUCGUGGUGc- -3'
miRNA:   3'- -GGGUUCCa---------CCGa---CGGCGGCACCGCua -5'
18823 3' -61.5 NC_004683.1 + 46513 0.66 0.396826
Target:  5'- cUCCAAGaccUGGUUGCgGCaCGUGGuCGAc -3'
miRNA:   3'- -GGGUUCc--ACCGACGgCG-GCACC-GCUa -5'
18823 3' -61.5 NC_004683.1 + 31524 0.66 0.396826
Target:  5'- gCCGuuuuGGGUGaccGCcGCCGCCGUGGgGu- -3'
miRNA:   3'- gGGU----UCCAC---CGaCGGCGGCACCgCua -5'
18823 3' -61.5 NC_004683.1 + 56675 0.66 0.379486
Target:  5'- gCCCGcGGUGG-UGCUGCCuuUGGUGGg -3'
miRNA:   3'- -GGGUuCCACCgACGGCGGc-ACCGCUa -5'
18823 3' -61.5 NC_004683.1 + 21583 0.66 0.379486
Target:  5'- gUgAAGGUGuaUGCCccgGCUGUGGUGAa -3'
miRNA:   3'- gGgUUCCACcgACGG---CGGCACCGCUa -5'
18823 3' -61.5 NC_004683.1 + 6640 0.66 0.374385
Target:  5'- aCCGAGGcucaGGCUGCCaucgacgccgugcugGCCGcGGCGc- -3'
miRNA:   3'- gGGUUCCa---CCGACGG---------------CGGCaCCGCua -5'
18823 3' -61.5 NC_004683.1 + 13438 0.66 0.362662
Target:  5'- cCCCAguGGGUGGCaGCgCGUUccccgcgcaggGUGGCGGc -3'
miRNA:   3'- -GGGU--UCCACCGaCG-GCGG-----------CACCGCUa -5'
18823 3' -61.5 NC_004683.1 + 38707 0.67 0.354446
Target:  5'- -aCAAGGUGGguguacuccgUUGCCuGCC-UGGCGAUa -3'
miRNA:   3'- ggGUUCCACC----------GACGG-CGGcACCGCUA- -5'
18823 3' -61.5 NC_004683.1 + 2128 0.67 0.330594
Target:  5'- gCCCugguGGUGGCgggcGUgGCCGUgcuGGCGGg -3'
miRNA:   3'- -GGGuu--CCACCGa---CGgCGGCA---CCGCUa -5'
18823 3' -61.5 NC_004683.1 + 48983 0.67 0.330594
Target:  5'- gCCCA---UGGCUGCCGCac-GGUGAUa -3'
miRNA:   3'- -GGGUuccACCGACGGCGgcaCCGCUA- -5'
18823 3' -61.5 NC_004683.1 + 27062 0.69 0.253404
Target:  5'- gCCGAGGUGGCcgGCCuGCCc-GGCGc- -3'
miRNA:   3'- gGGUUCCACCGa-CGG-CGGcaCCGCua -5'
18823 3' -61.5 NC_004683.1 + 43487 0.7 0.212425
Target:  5'- gCCCucguGGG-GGCUGCCGCgaccgcagacCGUcGGCGAc -3'
miRNA:   3'- -GGGu---UCCaCCGACGGCG----------GCA-CCGCUa -5'
18823 3' -61.5 NC_004683.1 + 30509 0.71 0.196172
Target:  5'- gCCGAGGUGGaUGUCGCUGaggcugaUGGCGGc -3'
miRNA:   3'- gGGUUCCACCgACGGCGGC-------ACCGCUa -5'
18823 3' -61.5 NC_004683.1 + 31292 0.71 0.172697
Target:  5'- aCCGGGGguugugcaGCUGCgGgCCGUGGCGGUg -3'
miRNA:   3'- gGGUUCCac------CGACGgC-GGCACCGCUA- -5'
18823 3' -61.5 NC_004683.1 + 21942 0.72 0.166466
Target:  5'- gCCCGGcGGUGGCgggcgGCCGCCGaguucaccggccaGGCGGg -3'
miRNA:   3'- -GGGUU-CCACCGa----CGGCGGCa------------CCGCUa -5'
18823 3' -61.5 NC_004683.1 + 19223 0.74 0.106667
Target:  5'- uCCCu-GGUGGCcGCCGCCG-GGuCGAa -3'
miRNA:   3'- -GGGuuCCACCGaCGGCGGCaCC-GCUa -5'
18823 3' -61.5 NC_004683.1 + 39620 0.77 0.070563
Target:  5'- uUCCGGGGUgGGC-GCCGCCGgggUGGCGAc -3'
miRNA:   3'- -GGGUUCCA-CCGaCGGCGGC---ACCGCUa -5'
18823 3' -61.5 NC_004683.1 + 23804 0.79 0.049049
Target:  5'- gCCGGGGUGGUgccgccgccggUGCCGCCGcGGCGGa -3'
miRNA:   3'- gGGUUCCACCG-----------ACGGCGGCaCCGCUa -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.