Figure 4

Distribution of SNPs causing interruptions to the ORFs of LSGs in various Arabidopsis thaliana accessions. Predicted SNPs predicted by Perlegen re-sequencing data sets that cause the interruption of an LSG ORF. Left hand axis: lists the gene model and the SNP name. Left hand column: Lists the reference nucleotide found in the Columbia accession (Col-0). Main body of table: SNPs causing a missing of a start codon (MSC) are coloured orange. SNPs causing an internal stop codon (ISC) are coloured green. Missing data (i.e. when the nucleotide is undetermined at that position) coloured gray. Only SNPs causing ISC or MSC are annotated. Bottom axis: lists the accessions tested, they are divided by broad geographical distinctions; i.e. red = Northern Europe, blue = Central Europe, purple = Mediterranean, orange = British Isles, yellow = Central Asia, brown = Japan, pink = North America and gray = Cape Verde Islands. Right hand columns: First column represents the SNP data at the position for the intergenic alignment between the LSGs and intergenic regions in Arabidopsis lyrata. SNP types marked the same as the main table with the addition of an "X" representing those instances were no alignment was identified in Arabidopsis lyrata. The second column represent the total number of ISC and indels found in the aligned Arabidopsis lyrata sequence. The final column represents the proportion of the LSG that is covered by the Arabidopsis lyrata alignment.