Table 4.

Number and length of genome regions covered by SV detected in the Holstein and Jersey sets and the three validated sets, and in the overlapped set between Holstein and Jersey

Final SV output set	SV counts				SV covered region (Mb)
SV Set	DEL	INS	INV	DUP	DEL	INS	INV	DUP
POP_HOL	4037	7679	3623	2179	8.4889	0.6334	13.8377	4.3995
POP_JER	2679	0*	415	1191	5.2239	0.0000*	1.0497	2.3675
Overlap between POP_HOL and POP_JER	1533	0	69	601	3.1790	0.0000	0.2188	1.2270
TWICE_SEQ	10,893	174	200	267	4.8495	0.0077	0.3882	0.3934
FAM_HOL	4230	24	106	258	2.9639	0.0012	0.2057	0.3173
FAM_JER	619	0*	17	58	0.5944	0.0000*	0.0240	0.0466
Overlap between FAM_HOL and FAM_JER	509	0	14	27	0.4704	0.0000	0.0185	0.0225

* No insertions were found for the Jersey population