1. A computer program product embodied in a non-transitory computer readable medium comprising instructions executable by one or more processors to cause a system to perform functions to determine a presence or absence of a fetal aneuploidy in a mixture of fetal and maternal genomic DNA obtained from a maternal blood sample obtained from a woman who is pregnant or who is suspected of being pregnant, wherein the functions comprise: receiving genomic DNA sequence data representing a complete genome, wherein the DNA sequence data is obtained by conducting whole genome amplification of a mixture of fetal and maternal genomic DNA to obtain amplified nucleic acid molecules, and conducting ultra-deep sequencing of the amplified nucleic acid molecules obtained from the mixture of fetal and maternal genomic DNA, thereby producing sequence data representing the complete genome, and wherein the ultra-deep sequencing comprises further amplification of the amplified nucleic acid molecules to produce at least one million copies of individual amplified nucleic acid molecules in parallel; processing the DNA sequence data to quantify DNA regions of (i) at least one test chromosome being tested for a presence or absence of fetal aneuploidy, and (ii) at least one control chromosome that is diploid; determining the presence or absence of fetal aneuploidy for the at least one test chromosome based on data for the quantified DNA regions of the at least one test chromosome and the at least one control chromosome; constructing an image file from the DNA sequence data and printing or displaying an image from the data in the image file.