Table 2. Structural variants.

Chr	Location (Kb)	Variant type	DRA accession and name
			SRR922216, SES205A	SRR922217, 82–72	SRR528718, IJ76–514	SRR922218, B4362	SRR922219, RB72454	SRR922220, RB867515	SRR528717, Q165	SRR871522, SP70–1143
1	40.4	150 bp indel, 40.6 Kb (−) join 223.4 Kb (−)	1	1	0	0	0	0	0	0
1	45.7	120 Kb inversion	1	1	0	0	0	0	0	0
1	51.3–53.1	1.8 Kb deletion	1	1	0	0	0	0	0	0
1	82–82.5	500 bp deletion	1	1	0	0	0	0	0	0
1	83.5–98	Complex set of indels and rearrangements including links to chromosome 2	1	1	0	0	0	0	0	0
1	150.2–150.6	150.2 Kb (+) join Chromosome 2 5.4 Kb (+); 150.6 Kb (−) join Chromosome 2 5.5 Kb (−)	1	1	0	0	0	0	0	0
1	185–190	185 Kb (+) join 86 Kb (−); 190 Kb (+) join Chromosome 2 30 Kb (−)	1	1	0	0	0	0	0	0
1	196	196 Kb (+) join Chromosome 2 112 Kb (+)	1	1	0	0	0	0	0	0
1	196.9–197.3	400 bp deletiion	1	1	0	0	0	0	0	0
1	198–198.5	500 bp deletion	1	1	0	0	0	0	0	0
1	198.6–208.1	<10% average read depth suggesting nuclear DNA	1	1	0	0	0	0	0	0
1	222.8	222.8 Kb (+) join 235.6 Kb (+); 222.8 Kb (−) join 40.8 Kb (−)	1	1	0	0	0	0	0	0
1	235.6	235.6 Kb (+) join 222.8 Kb (+); 235.6 Kb (−) join 160.8 Kb (−)	1	1	0	0	0	0	0	0
1	262.7–263.2	500 bp deletion	1	1	0	0	0	0	0	0
2	29.4–30	29.4 Kb (+) join Chromosome 1 159.8 Kb (−); Almost zero read depth 29.4–29.9 Kb.	1	1	0	0	0	0	0	0
2	75.8–75.9	100 bp deletion	1	1	0	0	0	0	0	0
2	94.6	94.6 Kb (+/−) join Chromosome 1 120.8 Kb (+/−)	1	1	0	0	0	0	0	0
2	108.8	50 bp deletion	1	1	0	0	0	0	0	0
2	112.2	112.2 Kb (+) join Chromosome 1 195.7 Kb (+)	1	1	0	0	0	0	0	0
2	139–139.5	500 bp deletion	1	1	0	0	0	0	0	0

Presence of the variant is indicated by a 1 and a 0 represents the arrangement from our assembly.