Characterization and management of long runs of homozygosity in parental nucleus lines and their associated crossbred progeny

Table 3 Regions of the genome with high levels of autozygosity across the genome for the Duroc, Large White, and Landrace breeds

SSC	Location^a (Mb)	LW–DU		LA–DU		LW–LA
SSC	Location^a (Mb)	5 Mb^b	10 Mb^c	5 Mb^b	10 Mb^c	5 Mb^b	10 Mb^c
1	76.1–88.1					88.1\|−0.32	88.1\|−0.30
1	107.2–115.8					110.5\|−0.35
1	151.2–160.2					156.2\|0.31
1	248.7–264.2	257.6\|−0.57	257.9\|−0.36	257.6\|−0.53	256.7\|−0.34
2	106.4–118.7		110.8\|0.34				109.6\|0.28
3	36.4–59.5	55.9\|−0.68	55.9\|−0.51	55.9\|−0.67	55.6\|−0.57	47.4\|0.29
3	74.1–90.9					77.8\|0.40	80.4\|0.28
4	48.9–61.0	53.5\|0.42				54.2\|0.45
4	108.2–114.2					112\|0.36
5	17.9–34.0					20.1\|−0.44	24.3\|−0.37
6	82.3–119.6	112.9\|−0.72	108.8\|−0.64	112.9\|−0.73	108.8\|−0.65
9	72.6–95.9	77.8\|−0.73		82.6\|−0.73	77.6\|−0.40
13	15.0–19.9	19.7\|−0.38		15.0\|−0.34
13	56.2–66.3	58.9\|−0.51	59.2\|−0.32	58.3\|−0.49
14	121.0–132.5	132.4\|−0.64	132.4\|−0.34	132.4\|−0.66	132.4\|−0.33
15	59.4–84.2	66.4\|−0.78	66.4\|−0.54	67.9\|−0.74	69.3\|−0.51
15	144.7–152.4	150.1\|−0.78		147.2\|−0.78
16	32.1–52.2					37.4\|0.45	37.4\|0.43
18	40.8–46.4	43.5\|0.35				43.5\|0.41

DU Duroc, LW Large White, LA Landrace
^aRepresents regions in base pairs (if regions overlapped across populations or another ROH cutoff length then it was aggregated into a single region)
^bLocation with maximum ROH frequency based on a 5 Mb cutoff and its associated frequency after vertical line
^cLocation with maximum ROH frequency based on a 10 Mb cutoff and its associated frequency after vertical line

ISSN: 1297-9686

SSC	Location^a (Mb)	LW–DU		LA–DU		LW–LA
SSC	Location^a (Mb)	5 Mb^b	10 Mb^c	5 Mb^b	10 Mb^c	5 Mb^b	10 Mb^c
1	76.1–88.1					88.1\|−0.32	88.1\|−0.30
1	107.2–115.8					110.5\|−0.35
1	151.2–160.2					156.2\|0.31
1	248.7–264.2	257.6\|−0.57	257.9\|−0.36	257.6\|−0.53	256.7\|−0.34
2	106.4–118.7		110.8\|0.34				109.6\|0.28
3	36.4–59.5	55.9\|−0.68	55.9\|−0.51	55.9\|−0.67	55.6\|−0.57	47.4\|0.29
3	74.1–90.9					77.8\|0.40	80.4\|0.28
4	48.9–61.0	53.5\|0.42				54.2\|0.45
4	108.2–114.2					112\|0.36
5	17.9–34.0					20.1\|−0.44	24.3\|−0.37
6	82.3–119.6	112.9\|−0.72	108.8\|−0.64	112.9\|−0.73	108.8\|−0.65
9	72.6–95.9	77.8\|−0.73		82.6\|−0.73	77.6\|−0.40
13	15.0–19.9	19.7\|−0.38		15.0\|−0.34
13	56.2–66.3	58.9\|−0.51	59.2\|−0.32	58.3\|−0.49
14	121.0–132.5	132.4\|−0.64	132.4\|−0.34	132.4\|−0.66	132.4\|−0.33
15	59.4–84.2	66.4\|−0.78	66.4\|−0.54	67.9\|−0.74	69.3\|−0.51
15	144.7–152.4	150.1\|−0.78		147.2\|−0.78
16	32.1–52.2					37.4\|0.45	37.4\|0.43
18	40.8–46.4	43.5\|0.35				43.5\|0.41