##fileformat=VCFv4.1
##source=mason_variator
##reference=../input/random.fasta
##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the variant described in this record">
##INFO=<ID=SVLEN,Number=.,Type=Integer,Description="Difference in length between REF and ALT alleles">
##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
##INFO=<ID=TARGETPOS,Number=1,Type=String,Description="Target position for duplications.">
##ALT=<ID=INV,Description="Inversion">
##ALT=<ID=DUP,Description="Duplication">
##contig=<ID=1,length=10000>
##contig=<ID=2,length=1000>
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	simulated
1	55	sim_sv_indel_0	TTGACCCATGCAGAACGAGAGCTTGCCGCTGAATGGGAACATCGCCGACGTTAGAG	T	.	PASS	SVTYPE=DEL;SVLEN=-55	.	0|1
1	207	sim_small_indel_0	T	TAGTA	.	PASS	.	.	1|0
1	260	sim_dup_0	C	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=58;END=318;TARGETPOS=1:372	.	1|0
1	465	sim_trans_0	G	G[1:544[	.	PASS	SVTYPE=BND	.	0|1
1	466	sim_trans_0	C	[1:627[C	.	PASS	SVTYPE=BND	.	0|1
1	543	sim_trans_0	T	T[1:628[	.	PASS	SVTYPE=BND	.	0|1
1	544	sim_trans_0	G	[1:465[G	.	PASS	SVTYPE=BND	.	0|1
1	627	sim_trans_0	A	A[1:466[	.	PASS	SVTYPE=BND	.	0|1
1	628	sim_trans_0	G	[1:543[G	.	PASS	SVTYPE=BND	.	0|1
1	738	sim_sv_indel_1	C	CTGATTAACGGTCCTATTTCATTGACATAGATGAGGCTTAACTTTTGCCGGTCAGCCTCGGAATAGTTTGC	.	PASS	SVTYPE=INS;SVLEN=70	.	0|1
1	855	sim_inv_0	A	<INV>	.	PASS	SVTYPE=INV;END=932;SVLEN=77	.	1|0
1	1022	sim_small_indel_1	GCGGCGG	G	.	PASS	.	.	0|1
1	1160	sim_snp_0	G	C,T	.	PASS	.	.	1|2
1	1234	sim_dup_1	T	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=100;END=1334;TARGETPOS=1:1400	.	1|0
1	1420	sim_snp_1	C	A	.	PASS	.	.	1|1
1	1528	sim_sv_indel_2	G	GACTCAAGCAGGTCGATGAAGGTTATAGGCTGATCTGGCCGGCATTTCTCGGGGCAACCCAACCTAGTGGATCGATTACGGGATAGCCC	.	PASS	SVTYPE=INS;SVLEN=88	.	1|0
1	1538	sim_snp_2	A	C,T	.	PASS	.	.	2|1
1	1546	sim_trans_1	T	T[1:1623[	.	PASS	SVTYPE=BND	.	0|1
1	1547	sim_trans_1	A	[1:1678[A	.	PASS	SVTYPE=BND	.	0|1
1	1622	sim_trans_1	G	G[1:1679[	.	PASS	SVTYPE=BND	.	0|1
1	1623	sim_trans_1	G	[1:1546[G	.	PASS	SVTYPE=BND	.	0|1
1	1678	sim_trans_1	T	T[1:1547[	.	PASS	SVTYPE=BND	.	0|1
1	1679	sim_trans_1	G	[1:1622[G	.	PASS	SVTYPE=BND	.	0|1
1	1882	sim_small_indel_2	T	TG	.	PASS	.	.	1|0
1	2062	sim_dup_2	C	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=52;END=2114;TARGETPOS=1:2214	.	0|1
1	2205	sim_small_indel_3	C	CGAA	.	PASS	.	.	1|0
1	2275	sim_dup_3	G	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=100;END=2375;TARGETPOS=1:2430	.	0|1
1	2311	sim_snp_3	T	C	.	PASS	.	.	1|1
1	2451	sim_sv_indel_3	ACCCTAATGAATACAACGAGCAGCCGACAGCCAGTGAATCGCGTGATACATTGCCTTGGAATCTTGGCTACATTCGGTTGTTTGCATC	A	.	PASS	SVTYPE=DEL;SVLEN=-87	.	1|0
1	2899	sim_inv_1	T	<INV>	.	PASS	SVTYPE=INV;END=2999;SVLEN=100	.	1|0
1	3026	sim_trans_2	T	T[1:3096[	.	PASS	SVTYPE=BND	.	1|0
1	3027	sim_trans_2	G	[1:3156[G	.	PASS	SVTYPE=BND	.	1|0
1	3095	sim_trans_2	G	G[1:3157[	.	PASS	SVTYPE=BND	.	1|0
1	3096	sim_trans_2	A	[1:3026[A	.	PASS	SVTYPE=BND	.	1|0
1	3156	sim_trans_2	T	T[1:3027[	.	PASS	SVTYPE=BND	.	1|0
1	3157	sim_trans_2	G	[1:3095[G	.	PASS	SVTYPE=BND	.	1|0
1	3222	sim_trans_3	G	G[1:3298[	.	PASS	SVTYPE=BND	.	1|0
1	3223	sim_trans_3	C	[1:3350[C	.	PASS	SVTYPE=BND	.	1|0
1	3297	sim_trans_3	T	T[1:3351[	.	PASS	SVTYPE=BND	.	1|0
1	3298	sim_trans_3	G	[1:3222[G	.	PASS	SVTYPE=BND	.	1|0
1	3350	sim_trans_3	T	T[1:3223[	.	PASS	SVTYPE=BND	.	1|0
1	3351	sim_trans_3	T	[1:3297[T	.	PASS	SVTYPE=BND	.	1|0
1	3279	sim_snp_4	T	A,C	.	PASS	.	.	1|2
1	3645	sim_dup_4	A	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=68;END=3713;TARGETPOS=1:3772	.	1|0
1	3984	sim_small_indel_4	A	AT	.	PASS	.	.	1|0
1	4225	sim_sv_indel_4	AGAGTCGAGTTAAACGGGCCAACCTACTCGTCGTCGAGTGGTTTACAAGCATAACTTGGCACCCGCGGGGACTAGCGCTCCTTTAAATGTCCAGCACCGG	A	.	PASS	SVTYPE=DEL;SVLEN=-99	.	1|0
1	4403	sim_inv_2	T	<INV>	.	PASS	SVTYPE=INV;END=4472;SVLEN=69	.	0|1
1	4437	sim_small_indel_5	C	CA	.	PASS	.	.	0|1
1	4536	sim_inv_3	T	<INV>	.	PASS	SVTYPE=INV;END=4630;SVLEN=94	.	1|0
1	4826	sim_inv_4	A	<INV>	.	PASS	SVTYPE=INV;END=4877;SVLEN=51	.	1|0
1	4911	sim_sv_indel_5	C	CCCCGCACTCGATTTCCCGAGATTTGACCCCTCGCATTACTGCGCAAAGTCACGGACTTGTCGTACGGAACTAGCG	.	PASS	SVTYPE=INS;SVLEN=75	.	0|1
1	5002	sim_trans_4	G	G[1:5096[	.	PASS	SVTYPE=BND	.	0|1
1	5003	sim_trans_4	A	[1:5151[A	.	PASS	SVTYPE=BND	.	0|1
1	5095	sim_trans_4	G	G[1:5152[	.	PASS	SVTYPE=BND	.	0|1
1	5096	sim_trans_4	C	[1:5002[C	.	PASS	SVTYPE=BND	.	0|1
1	5151	sim_trans_4	A	A[1:5003[	.	PASS	SVTYPE=BND	.	0|1
1	5152	sim_trans_4	T	[1:5095[T	.	PASS	SVTYPE=BND	.	0|1
1	5254	sim_sv_indel_6	TCAGCGCTGAGTCCTGCTCGGAACTAGGGTTTGCAGACGGACAGCCTTGGTACATTAAGCTACTCGGGCGCCCGCCCAAGGCTTG	T	.	PASS	SVTYPE=DEL;SVLEN=-84	.	0|1
1	5479	sim_dup_5	G	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=72;END=5551;TARGETPOS=1:5604	.	0|1
1	5707	sim_inv_5	A	<INV>	.	PASS	SVTYPE=INV;END=5776;SVLEN=69	.	0|1
1	5816	sim_small_indel_6	TC	T	.	PASS	.	.	0|1
1	5852	sim_trans_5	G	G[1:5940[	.	PASS	SVTYPE=BND	.	1|0
1	5853	sim_trans_5	G	[1:6010[G	.	PASS	SVTYPE=BND	.	1|0
1	5939	sim_trans_5	T	T[1:6011[	.	PASS	SVTYPE=BND	.	1|0
1	5940	sim_trans_5	C	[1:5852[C	.	PASS	SVTYPE=BND	.	1|0
1	6010	sim_trans_5	G	G[1:5853[	.	PASS	SVTYPE=BND	.	1|0
1	6011	sim_trans_5	A	[1:5939[A	.	PASS	SVTYPE=BND	.	1|0
1	5981	sim_snp_5	A	G,T	.	PASS	.	.	1|2
1	6205	sim_sv_indel_7	A	ATAACCTCCAGACGACCAAGCCGAACAGCGCCATTGGTTTGATATAACACATCTGAACTGCGCAACTGTCCGGCAACGGACTCAGCTGTGTCATTCGGCA	.	PASS	SVTYPE=INS;SVLEN=99	.	1|0
1	6381	sim_dup_6	C	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=79;END=6460;TARGETPOS=1:6519	.	0|1
1	6940	sim_trans_6	G	G[1:7026[	.	PASS	SVTYPE=BND	.	0|1
1	6941	sim_trans_6	C	[1:7111[C	.	PASS	SVTYPE=BND	.	0|1
1	7025	sim_trans_6	T	T[1:7112[	.	PASS	SVTYPE=BND	.	0|1
1	7026	sim_trans_6	C	[1:6940[C	.	PASS	SVTYPE=BND	.	0|1
1	7111	sim_trans_6	T	T[1:6941[	.	PASS	SVTYPE=BND	.	0|1
1	7112	sim_trans_6	A	[1:7025[A	.	PASS	SVTYPE=BND	.	0|1
1	7135	sim_trans_7	T	T[1:7228[	.	PASS	SVTYPE=BND	.	1|0
1	7136	sim_trans_7	C	[1:7325[C	.	PASS	SVTYPE=BND	.	1|0
1	7227	sim_trans_7	A	A[1:7326[	.	PASS	SVTYPE=BND	.	1|0
1	7228	sim_trans_7	C	[1:7135[C	.	PASS	SVTYPE=BND	.	1|0
1	7325	sim_trans_7	C	C[1:7136[	.	PASS	SVTYPE=BND	.	1|0
1	7326	sim_trans_7	C	[1:7227[C	.	PASS	SVTYPE=BND	.	1|0
1	7155	sim_small_indel_7	GCA	G	.	PASS	.	.	1|0
1	7335	sim_small_indel_8	AGCCTCT	A	.	PASS	.	.	1|0
1	7768	sim_sv_indel_8	C	CCTTACAGCGGACACGTGTGTATCTGATTTTAGGGCCGGAAGGCTAACACGAGATAGGTACA	.	PASS	SVTYPE=INS;SVLEN=61	.	1|0
1	7805	sim_sv_indel_9	AGCCCCCTGCCTTTAGCTGCGAATCTCAGTATGGCGCGGGATAAATTTCAGAAGAACAGAGTCTTCCCACCAATCGTCTCAGCCCCTAAGACAAGGCATA	A	.	PASS	SVTYPE=DEL;SVLEN=-99	.	1|0
1	8049	sim_snp_6	G	A,T	.	PASS	.	.	2|1
1	8141	sim_dup_7	T	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=61;END=8202;TARGETPOS=1:8294	.	1|0
1	8545	sim_snp_7	G	C,T	.	PASS	.	.	2|1
1	8891	sim_inv_6	C	<INV>	.	PASS	SVTYPE=INV;END=8959;SVLEN=68	.	1|0
1	9190	sim_inv_7	A	<INV>	.	PASS	SVTYPE=INV;END=9247;SVLEN=57	.	1|0
1	9351	sim_dup_8	G	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=63;END=9414;TARGETPOS=1:9481	.	0|1
1	9363	sim_small_indel_9	GTTACCA	G	.	PASS	.	.	1|0
1	9489	sim_snp_8	C	A	.	PASS	.	.	1|0
1	9489	sim_snp_8	C	G	.	PASS	.	.	0|1
2	156	sim_small_indel_10	C	CCA	.	PASS	.	.	1|0
2	233	sim_sv_indel_10	CCCCAACAATCCAAGCAGATTTAATATGATGTCGTCGTCCAGCCTTTGACTAATATTACAATCTATATGCATGTCTACT	C	.	PASS	SVTYPE=DEL;SVLEN=-78	.	1|0
2	578	sim_dup_9	G	<DUP>	.	PASS	SVTYPE=DUP;SVLEN=91;END=669;TARGETPOS=2:764	.	0|1
