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In some cases insufficient information is available to assign the correct order or positioning of loci, while data errors can introduce distortions in the maps.
Combined with observations of non-reproducible radial positioning of loci inside mitotic chromosomes [ 118], this has led to strong support of several hierarchical features of mitotic chromosomes that are not always explained by classic loop-axis models (below).
The exhaustive analysis of this collection enables the generation of chromosomal contact maps, that allows deciphering the average positioning of loci of interest with respects with each others within the nucleus.
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Positions of loci PinA and PinB were obtained from published data [ 46].
The chromosomal positions of loci in the new candidate region are in bold italic.
The map positions of loci where both parents were homozygous were added later by imputing them from the relative positions of their homoeologous loci.
Therefore, these data indicate that both the graphical genotypes and the mapping position of loci were adequate.
Map positions of loci encompassing the candidate genes and 50 kb downstream of their stop codon and upstream of their start codon were obtained from the Ensembl database.
This is supported by a correlation of 0.96 between positions of loci given in cR and Mb (according to Additional file 2).
One possible use of a molecular map is to determine the chromosomal positions of loci that have been identified by mutation.
These positions of loci with questionable placements indicating problem areas in the current assembly have to be refined in further assembly versions.
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