Fig. 5: LG1 Region 2 haplotype structure. | Nature Communications

Fig. 5: LG1 Region 2 haplotype structure.

From: A large and diverse autosomal haplotype is associated with sex-linked colour polymorphism in the guppy

Fig. 5

a Genotype plot for Iso-Y lines and natural data combined showing the genotype of each SNP depicted as homozygous reference (HOM REF: yellow), heterozygous (HET: pink) or homozygous alternative (HOM ALT: purple); each individual is coloured by Iso-Y line, or by sex (females in purple, males in cyan). The bracket shows the heterozygous individuals used in the haplotype analysis in panel (b). b Haplotype plot of phased data for natural-derived heterozygous samples (ntotal = 9, nmales = 3, nfemales = 6) polarised to the Iso-Y9 haplotype (purple) and alternative haplotype (yellow). Symbols next to each of the individuals represent sex (females in purple, males in cyan). Breakpoints (BP) in the haplotype are identified when phases switch between purple and yellow. Dashed lines mark conserved BPs (≥2 individuals): BP1: 11.6 Mb (nfemales = 2); BP2: 11.7 Mb (nfemales = 3); BP3: 12.2 Mb (nfemales = 3, nmales = 1); BP4: 13.1 Mb (nfemales = 2, nmales = 2); BP5: 14.4 Mb (nfemales = 2); BP6: 15.4 Mb (nfemales = 2). Arrows at the bottom highlight the location of gene annotations for the region. Source data underlying all components of Fig. 5 are provided as Source data files.

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