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The next closest genome pair with different cps loci was NCSR101 and ATCC BAA-2146 (both ST11), which differed by 500 SNPs across the rest of the genome, whereas all other pairs of genomes with different cps loci differed by >1,000 SNPs.
Genomes with different cps loci also differed substantially in terms of gene content outside the cps locus (mean 809 genes different between pairs of genomes).
progressiveMauve excels at aligning rearranged genomes with different gene content.
In a separate experiment, we applied smyRNA to a set of genomes with different types.
For instance, two individuals with identical genetic makeup may have distinct set point viral loads because viral genomes with different fitness may get fixed in the two patients by sheer chance.
We annotated TE sequences from 10 fungal genomes with different TE content (1-70%).
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Table 4 shows the results of searching rRNA query in the randomized genome with different k.
Each block can be seen as a region of genome with different evolutionary history.
To get a comprehensive picture of NFI binding, we scanned the genome with different tag count thresholds.
Recently, a number of studies have documented transcription throughout most of the genome, with different classes of ncRNA having different levels of conservation between human and mouse (Pang et al. 2006).
Here, we describe TRACER (http://tracerdatabase.embl.de), a resource that centralizes information from a large on-going functional exploration of the mouse genome with different transposon-associated regulatory sensors.
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