Fig. 2

Genomic divergence based on a CMH test of chromosome 28 [63,64,65,66]. a Four annotated genes and intergenic region that are both significantly differentiated based on a CMH test with Bonferroni corrected threshold at α = 0.05. Green SNPs are those that are synonymous or fall outside of coding regions within genes, red SNPs correspond to intergenic or unannotated regions, and pink SNPs are non-synonymous mutations. Genes are displayed in their transcription orientation whereby arrows indicate 3’UTRs, bars represent other non-coding regions, open regions represent coding regions, and end-arrows represent 5’UTRs. b View of the entire chromosome 28 with CMH p-values and the differentiated region highlighted. c Magnification of the structure of greb1L, highlighting non-synonymous mutations. Pink triangles illustrate the amino acid substitution that occurs, whereby blue text represents the mutation in ocean-migrating fish and red text represents the mutation in stream-maturing fish. The yellow line represents SNP density at 5-kb windows across greb1L