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
12333 3' -56.4 NC_003324.1 + 32086 0.66 0.67408
Target:  5'- --cGGCCUCgcugcgccucggcucGUCGCCGGUgAGgCCGa -3'
miRNA:   3'- gaaCCGGAG---------------UAGUGGUCGgUCaGGCg -5'
12333 3' -56.4 NC_003324.1 + 31779 0.66 0.669725
Target:  5'- -gUGGUUcgCGUCACCAGCaCGGggaUGCg -3'
miRNA:   3'- gaACCGGa-GUAGUGGUCG-GUCag-GCG- -5'
12333 3' -56.4 NC_003324.1 + 42867 0.66 0.658814
Target:  5'- --aGGCU-----GCCGGCCGGcCCGCg -3'
miRNA:   3'- gaaCCGGaguagUGGUCGGUCaGGCG- -5'
12333 3' -56.4 NC_003324.1 + 28626 0.66 0.658814
Target:  5'- -gUGGCCcggaUCGUUGCgGGCCGccuuGUCgCGCg -3'
miRNA:   3'- gaACCGG----AGUAGUGgUCGGU----CAG-GCG- -5'
12333 3' -56.4 NC_003324.1 + 33346 0.66 0.647879
Target:  5'- -aUGGUCaUCGUC-CCGgugcgugguuGCCGGcUCCGCg -3'
miRNA:   3'- gaACCGG-AGUAGuGGU----------CGGUC-AGGCG- -5'
12333 3' -56.4 NC_003324.1 + 42117 0.66 0.647879
Target:  5'- gCUUcGCaCUCGUCGCCAauGCCg--CCGCg -3'
miRNA:   3'- -GAAcCG-GAGUAGUGGU--CGGucaGGCG- -5'
12333 3' -56.4 NC_003324.1 + 20892 0.66 0.63693
Target:  5'- --cGGCgaugcgCGUCACCAaCaCGGUCCGCc -3'
miRNA:   3'- gaaCCGga----GUAGUGGUcG-GUCAGGCG- -5'
12333 3' -56.4 NC_003324.1 + 45940 0.66 0.625976
Target:  5'- --cGGCCUCG-CAUCAGgCGccCCGCg -3'
miRNA:   3'- gaaCCGGAGUaGUGGUCgGUcaGGCG- -5'
12333 3' -56.4 NC_003324.1 + 6009 0.66 0.625976
Target:  5'- ---aGCCgcaAUUGCCGcCCAGUCCGCu -3'
miRNA:   3'- gaacCGGag-UAGUGGUcGGUCAGGCG- -5'
12333 3' -56.4 NC_003324.1 + 43909 0.66 0.625976
Target:  5'- gUUGaGCCUUuggCGCCGGCaccgAGcCCGCa -3'
miRNA:   3'- gAAC-CGGAGua-GUGGUCGg---UCaGGCG- -5'
12333 3' -56.4 NC_003324.1 + 18100 0.67 0.615028
Target:  5'- -aUGGCC-CGUggCGCCGGCCAaUCgGUa -3'
miRNA:   3'- gaACCGGaGUA--GUGGUCGGUcAGgCG- -5'
12333 3' -56.4 NC_003324.1 + 31251 0.67 0.615028
Target:  5'- --gGGCCUgAUgGCgcaGGCCGGgcagcUCCGCg -3'
miRNA:   3'- gaaCCGGAgUAgUGg--UCGGUC-----AGGCG- -5'
12333 3' -56.4 NC_003324.1 + 3045 0.67 0.615028
Target:  5'- --gGGCCUguUCGCgGGCgCGGUcucucucaauggCCGCa -3'
miRNA:   3'- gaaCCGGAguAGUGgUCG-GUCA------------GGCG- -5'
12333 3' -56.4 NC_003324.1 + 29581 0.67 0.615028
Target:  5'- --aGGCCUCGUCGCUcgauuccucgGGCagaacGUCCuGCa -3'
miRNA:   3'- gaaCCGGAGUAGUGG----------UCGgu---CAGG-CG- -5'
12333 3' -56.4 NC_003324.1 + 11117 0.67 0.613933
Target:  5'- -aUGGCCUg--CGCUauGGCCcgaccuuGGUCCGCu -3'
miRNA:   3'- gaACCGGAguaGUGG--UCGG-------UCAGGCG- -5'
12333 3' -56.4 NC_003324.1 + 11218 0.67 0.604094
Target:  5'- -aUGGCCUaCAUCGCCGGaaauggagaUCAG-CCGg -3'
miRNA:   3'- gaACCGGA-GUAGUGGUC---------GGUCaGGCg -5'
12333 3' -56.4 NC_003324.1 + 54173 0.67 0.588829
Target:  5'- -aUGcGCUUCGUCACaaacuggaugucgAGCCGGUCgGCc -3'
miRNA:   3'- gaAC-CGGAGUAGUGg------------UCGGUCAGgCG- -5'
12333 3' -56.4 NC_003324.1 + 2492 0.67 0.582307
Target:  5'- --cGGCUUCAUCAUCGGC--GUUgGCg -3'
miRNA:   3'- gaaCCGGAGUAGUGGUCGguCAGgCG- -5'
12333 3' -56.4 NC_003324.1 + 19434 0.68 0.549954
Target:  5'- cCUUGGCCUUGUCcuuACCGGCaaagCCGa -3'
miRNA:   3'- -GAACCGGAGUAG---UGGUCGgucaGGCg -5'
12333 3' -56.4 NC_003324.1 + 14568 0.68 0.528693
Target:  5'- gUUGGCUg---CACCGGCU--UCCGCg -3'
miRNA:   3'- gAACCGGaguaGUGGUCGGucAGGCG- -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.