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Initial marker order was predicted based on alignment of DG marker sequences to the reference genome sequence [ 18].
Finally, we used the marker sequences to anchor the M. zebra genome sequence assembly to the linkage map, in order to identify candidate genes within each QTL interval.
Physical positions were retrieved from a gff3 file that contains alignments of marker sequences to the tomato pseudo-molecules (http://solgenomics.net/itag/release/2.3/list_files/ITAG2.3_sgn_data.gff3).net/itag/release/2.3/list_files/ITAG2.3_sgn_data.gff3
Considering the similarity of marker sequences to reference BESs and BACs, all markers except 074I10_3_2 were considered to be specific labels of appropriate BAC clones.
The restricted alignment of the marker sequences to the ancestral blocks and the limitations of genetic mapping make it difficult to confirm the absence of blocks in SY-PM genetic map.
The order of the DG markers based on genetic analysis was identical to their predicted physical order across chromosomes based on alignment of marker sequences to the reference genome sequence with four exceptions (see below).
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Meanwhile, by aligning the marker sequence to the "Darmor" genome of B. napus [ 23], an additional 156 marker sequence could be assigned to certain ancestral blocks.
Other marker libraries like Sequedex (Berendzen et al., 2012) rely on an individual marker sequence to contain the taxonomic signal in a single contiguous genetic element.
Identification of marker sequences related to immunity to mastitis may be instrumental in improving this trait and therefore reducing the costs associated with the prevention and treatment of the disease.
Having an ITS sequence or other marker sequences connected to a reliable publicly accessible representative of the species thus provides researchers with a reference point to a specific name.
Mapped loci of retinal dystrophies with unknown genetic basis (n = 45) were taken from RetNet, January 2004 [ 58] and placed on the human genome sequence by querying the USCS Genome Table Browser with DNA marker sequences shown to flank the minimal candidate region.
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