miRNA display CGI


Results 1 - 20 of 35 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
23058 3' -59.5 NC_005178.1 + 31952 1.09 0.000281
Target:  5'- aGCGCCAUCCCGGCGACGUCGGUCACGc -3'
miRNA:   3'- -CGCGGUAGGGCCGCUGCAGCCAGUGC- -5'
23058 3' -59.5 NC_005178.1 + 21259 0.82 0.032332
Target:  5'- gGUGCCGUCCgUGGCGGCGaCGGUCugGu -3'
miRNA:   3'- -CGCGGUAGG-GCCGCUGCaGCCAGugC- -5'
23058 3' -59.5 NC_005178.1 + 31368 0.74 0.136856
Target:  5'- gGCGCCAggcgcauagCCCGGCG-C-UgGGUCACGg -3'
miRNA:   3'- -CGCGGUa--------GGGCCGCuGcAgCCAGUGC- -5'
23058 3' -59.5 NC_005178.1 + 33234 0.74 0.136856
Target:  5'- uCGUCAUUCUGGCGGCGUCGuUCAUc -3'
miRNA:   3'- cGCGGUAGGGCCGCUGCAGCcAGUGc -5'
23058 3' -59.5 NC_005178.1 + 30358 0.72 0.165396
Target:  5'- aCGUC-UCCCGGCG-CGUCgucggccccGGUCGCGg -3'
miRNA:   3'- cGCGGuAGGGCCGCuGCAG---------CCAGUGC- -5'
23058 3' -59.5 NC_005178.1 + 24548 0.71 0.209867
Target:  5'- aUGCCAgcUCCUGgaGCGG-GUCGGUCGCGa -3'
miRNA:   3'- cGCGGU--AGGGC--CGCUgCAGCCAGUGC- -5'
23058 3' -59.5 NC_005178.1 + 7424 0.71 0.221057
Target:  5'- gGCGUCAUCUgCGGCGAU---GGUCACGc -3'
miRNA:   3'- -CGCGGUAGG-GCCGCUGcagCCAGUGC- -5'
23058 3' -59.5 NC_005178.1 + 27740 0.7 0.251265
Target:  5'- aGCGCCuggaCCUGGCGAgccaGUaCGGUgACGg -3'
miRNA:   3'- -CGCGGua--GGGCCGCUg---CA-GCCAgUGC- -5'
23058 3' -59.5 NC_005178.1 + 3380 0.7 0.251265
Target:  5'- -gGCCGUCgCaGGaauaGACGUCGGUCGgGa -3'
miRNA:   3'- cgCGGUAGgG-CCg---CUGCAGCCAGUgC- -5'
23058 3' -59.5 NC_005178.1 + 19808 0.69 0.26427
Target:  5'- cCGCCAUggUGGCGACGgucgagcgcggCGGUUACGg -3'
miRNA:   3'- cGCGGUAggGCCGCUGCa----------GCCAGUGC- -5'
23058 3' -59.5 NC_005178.1 + 13885 0.69 0.26427
Target:  5'- aGCGCCG-CCCGGCGugaaCGGgccagCGCGg -3'
miRNA:   3'- -CGCGGUaGGGCCGCugcaGCCa----GUGC- -5'
23058 3' -59.5 NC_005178.1 + 14916 0.69 0.29191
Target:  5'- aGCGCCAUCCUGGUGG-GagGGUUcaauCGg -3'
miRNA:   3'- -CGCGGUAGGGCCGCUgCagCCAGu---GC- -5'
23058 3' -59.5 NC_005178.1 + 21835 0.69 0.299164
Target:  5'- cCGCCG-CCUGGCuGGCGUUGGaaaGCGg -3'
miRNA:   3'- cGCGGUaGGGCCG-CUGCAGCCag-UGC- -5'
23058 3' -59.5 NC_005178.1 + 26142 0.69 0.299164
Target:  5'- aGCGUCcgCCCcucgGGCGAUGUCGuccaggccGUCGCu -3'
miRNA:   3'- -CGCGGuaGGG----CCGCUGCAGC--------CAGUGc -5'
23058 3' -59.5 NC_005178.1 + 10773 0.68 0.306557
Target:  5'- cCGCCAUCCUGGCGgugagugcgACG-CGGgauuaGCGg -3'
miRNA:   3'- cGCGGUAGGGCCGC---------UGCaGCCag---UGC- -5'
23058 3' -59.5 NC_005178.1 + 14729 0.68 0.306557
Target:  5'- cGCGCCGUCCUccauGGCGGCGg----CGCGc -3'
miRNA:   3'- -CGCGGUAGGG----CCGCUGCagccaGUGC- -5'
23058 3' -59.5 NC_005178.1 + 9673 0.68 0.314089
Target:  5'- uCGCCGagCCGGcCGAgG-CGGUCACc -3'
miRNA:   3'- cGCGGUagGGCC-GCUgCaGCCAGUGc -5'
23058 3' -59.5 NC_005178.1 + 28123 0.68 0.32176
Target:  5'- uCGCCAUCCUGGCcAgGUCGccaaUCAUGg -3'
miRNA:   3'- cGCGGUAGGGCCGcUgCAGCc---AGUGC- -5'
23058 3' -59.5 NC_005178.1 + 17045 0.68 0.32957
Target:  5'- cGUGCCGUUgagCCGGCcccaGGUGUCGGcCACGa -3'
miRNA:   3'- -CGCGGUAG---GGCCG----CUGCAGCCaGUGC- -5'
23058 3' -59.5 NC_005178.1 + 37393 0.68 0.348881
Target:  5'- cCGCaCAUCagcugaggaccguagCaaaaaGGCGACGUUGGUCACa -3'
miRNA:   3'- cGCG-GUAG---------------Gg----CCGCUGCAGCCAGUGc -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.