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This difference might reflect that the colorectal cancer cell lines harbour a certain number of genomic aberrations and these genomic aberrations could lead to some of the difference between the sequenced genomic loci and the loci in the simulation.
According to the synteny analysis, the variation in the repertoire of prophage-like regions is a remarkable difference between the sequenced C. ulcerans genomes, as one putative prophage was identified in the C. ulcerans 809 genome and four prophage-like regions were detected in the genome sequence of C. ulcerans BR-AD22 (Table 2).
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Considering the known intra-isolate variability of RNA viruses, and that sequences were determined from different plant parts collected at different times for the MinION, Illumina and Sanger sequencing approaches, this "maximum error rate" is remarkably low as some of the identified differences likely reflect actual differences between the sequenced viral populations and not sequencing errors.
All of the differences between the sequenced alleles were caused by addition, removal and rearrangement of repeat units as expected if strand slippage and recombination are the predominant mechanisms that generate new alleles [1].
These phage acquisitions represented almost the entire set of gene content differences between the sequenced ST-21 strains.
Below, differences between the sequenced genomes are first discussed with reference to a free-living chemoautotroph, Thiomicrospira crunogena.
Note that even if >90% of a reference genome is covered by reads, there may yet exist many true differences between the sequenced genome and the reference.
An important part of the genomic differences between the sequenced strains is made up of two gene regions encoding putative type IV secretion systems (T4SS).
In addition, clear examples of horizontal exchange in genes associated with 'core' metabolic functions were identified, supported by differences between the sequenced strains, including: ftsK, xerD and polA.
Substantial genetic differences exist between the sequenced tomato accessions and the reference sequence.
Note that the difference between the sequences ({z_{n}}) and ({w_{n}}) only lies in the first terms, so that (w_{n}xrightarrow{d} zeta) as (nrightarrowinfty).
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CEO of Professional Science Editing for Scientists @ prosciediting.com