High mutation rates have driven extensive structural polymorphism among human Y chromosomes

Sjoerd Repping, Saskia K M van Daalen, Laura G Brown, Cindy M Korver, Julian Lange, Janet D Marszalek, Tatyana Pyntikova, Fulco van der Veen, Helen Skaletsky, David C Page & Steve Rozen

Supplementary Fig. 1 (pdf 128K)
Y-chromosome genealogical tree and structural polymorphisms identified, with sample identifiers and haplotype designations.

Supplementary Fig. 2 (pdf 1M)
AZFc architectures that can be generated from the reference sequence in three or fewer homologous recombination events.

Supplementary Fig. 3 (pdf 12K)
Deletion at center of palindrome P3 in sample PD339.

Supplementary Fig. 4 (pdf 784K)
Structural variant in sample YCC038.

Supplementary Fig. 5 (pdf 172K)
Mutational event that can generate AZFc architecture c6.

Supplementary Fig. 6 (pdf 180K)
Mutational pathway that can generate AZFc architecture c36.

Supplementary Fig. 7 (pdf 356K)
Mutational pathways that can generate AZFc architecture c38.

Supplementary Fig. 8 (pdf 88K)
Copy number of BPY2 and CDY1 genes.

Supplementary Table 1 (pdf 20K)
Summary of samples and experimental results.

Supplementary Table 2 (pdf 80K)
AZFc architectures that can be generated from the reference sequence in three or fewer homologous recombination events.

Supplementary Methods (pdf 1M)

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