Telomere-to-telomere assembly of diploid chromosomes with Verkko
alignment-based scaffold assignment to the maternal haplotype and paternal haplotype for the full-coverage Verkko assembly. Almost all chromosomes are a single color, indicating that Verkko scaffolds resolved most chromosomes end-to-end. The only exceptions are in the acrocentrics, where some of the scaffolds could not be assigned due to low mappability and maternal Chromosome 6 and paternal Chromosomes 5 which are each composed of two large scaffolds. Over 99.
The Verkko assembly is consistent with scaffolds all representing a single chromosome bin. Once again, >99.7% of the scaffold bases can be assigned using Strand-seq. Only 2 and 4 Mb of sequence not scaffolded by Verkko could be assigned to the maternal and paternal haplotypes, respectively.The cluster assignment for the maternal haplotype and the paternal haplotype based on Strand-seq data for the HPRC manually curated assembly.
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