# BED files
# region: chr1   0  500
#input/annoGrator/insertionsPrimary.bed.chrom	input/annoGrator/insertionsPrimary.bed.chromStart	input/annoGrator/insertionsPrimary.bed.chromEnd	input/annoGrator/insertionsPrimary.bed.name	input/annoGrator/insertionsSecondary.bed.chrom	input/annoGrator/insertionsSecondary.bed.chromStart	input/annoGrator/insertionsSecondary.bed.chromEnd	input/annoGrator/insertionsSecondary.bed.name
chr1	20	20	pil	chr1	19	20	jBPil
chr1	150	250	pl	chr1	150	200	justBefore
chr1	150	250	pl	chr1	200	200	insLeft
chr1	150	250	pl	chr1	220	230	inThere
chr1	200	300	p	chr1	200	200	insLeft
chr1	200	300	p	chr1	220	230	inThere
chr1	200	300	p	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	320	justAfter
chr1	400	400	pi	chr1	380	400	jBInsPi
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	400	insPi
chr1	400	400	pi	chr1	400	420	jAInsPi
# region: chr1 100  200
#input/annoGrator/insertionsPrimary.bed.chrom	input/annoGrator/insertionsPrimary.bed.chromStart	input/annoGrator/insertionsPrimary.bed.chromEnd	input/annoGrator/insertionsPrimary.bed.name	input/annoGrator/insertionsSecondary.bed.chrom	input/annoGrator/insertionsSecondary.bed.chromStart	input/annoGrator/insertionsSecondary.bed.chromEnd	input/annoGrator/insertionsSecondary.bed.name
chr1	150	250	pl	chr1	150	200	justBefore
chr1	150	250	pl	chr1	200	200	insLeft
# region: chr1 200  300
#input/annoGrator/insertionsPrimary.bed.chrom	input/annoGrator/insertionsPrimary.bed.chromStart	input/annoGrator/insertionsPrimary.bed.chromEnd	input/annoGrator/insertionsPrimary.bed.name	input/annoGrator/insertionsSecondary.bed.chrom	input/annoGrator/insertionsSecondary.bed.chromStart	input/annoGrator/insertionsSecondary.bed.chromEnd	input/annoGrator/insertionsSecondary.bed.name
chr1	150	250	pl	chr1	200	200	insLeft
chr1	150	250	pl	chr1	220	230	inThere
chr1	200	300	p	chr1	200	200	insLeft
chr1	200	300	p	chr1	220	230	inThere
chr1	200	300	p	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	300	insRight
# region: chr1 300  400
#input/annoGrator/insertionsPrimary.bed.chrom	input/annoGrator/insertionsPrimary.bed.chromStart	input/annoGrator/insertionsPrimary.bed.chromEnd	input/annoGrator/insertionsPrimary.bed.name	input/annoGrator/insertionsSecondary.bed.chrom	input/annoGrator/insertionsSecondary.bed.chromStart	input/annoGrator/insertionsSecondary.bed.chromEnd	input/annoGrator/insertionsSecondary.bed.name
chr1	250	350	pr	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	320	justAfter
chr1	400	400	pi	chr1	380	400	jBInsPi
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	400	insPi
# region: chr1 400  500
#input/annoGrator/insertionsPrimary.bed.chrom	input/annoGrator/insertionsPrimary.bed.chromStart	input/annoGrator/insertionsPrimary.bed.chromEnd	input/annoGrator/insertionsPrimary.bed.name	input/annoGrator/insertionsSecondary.bed.chrom	input/annoGrator/insertionsSecondary.bed.chromStart	input/annoGrator/insertionsSecondary.bed.chromEnd	input/annoGrator/insertionsSecondary.bed.name
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	400	insPi
chr1	400	400	pi	chr1	400	420	jAInsPi
# BigBed files
# region: chr1   0  500
#input/annoGrator/insertionsPrimary.bb.chrom	input/annoGrator/insertionsPrimary.bb.chromStart	input/annoGrator/insertionsPrimary.bb.chromEnd	input/annoGrator/insertionsPrimary.bb.name	input/annoGrator/insertionsSecondary.bb.chrom	input/annoGrator/insertionsSecondary.bb.chromStart	input/annoGrator/insertionsSecondary.bb.chromEnd	input/annoGrator/insertionsSecondary.bb.name
chr1	20	20	pil	chr1	19	20	jBPil
chr1	150	250	pl	chr1	150	200	justBefore
chr1	150	250	pl	chr1	200	200	insLeft
chr1	150	250	pl	chr1	220	230	inThere
chr1	200	300	p	chr1	200	200	insLeft
chr1	200	300	p	chr1	220	230	inThere
chr1	200	300	p	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	320	justAfter
chr1	400	400	pi	chr1	380	400	jBInsPi
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	400	insPi
chr1	400	400	pi	chr1	400	420	jAInsPi
# region: chr1 100  200
#input/annoGrator/insertionsPrimary.bb.chrom	input/annoGrator/insertionsPrimary.bb.chromStart	input/annoGrator/insertionsPrimary.bb.chromEnd	input/annoGrator/insertionsPrimary.bb.name	input/annoGrator/insertionsSecondary.bb.chrom	input/annoGrator/insertionsSecondary.bb.chromStart	input/annoGrator/insertionsSecondary.bb.chromEnd	input/annoGrator/insertionsSecondary.bb.name
chr1	150	250	pl	chr1	150	200	justBefore
chr1	150	250	pl	chr1	200	200	insLeft
# region: chr1 200  300
#input/annoGrator/insertionsPrimary.bb.chrom	input/annoGrator/insertionsPrimary.bb.chromStart	input/annoGrator/insertionsPrimary.bb.chromEnd	input/annoGrator/insertionsPrimary.bb.name	input/annoGrator/insertionsSecondary.bb.chrom	input/annoGrator/insertionsSecondary.bb.chromStart	input/annoGrator/insertionsSecondary.bb.chromEnd	input/annoGrator/insertionsSecondary.bb.name
chr1	150	250	pl	chr1	200	200	insLeft
chr1	150	250	pl	chr1	220	230	inThere
chr1	200	300	p	chr1	200	200	insLeft
chr1	200	300	p	chr1	220	230	inThere
chr1	200	300	p	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	300	insRight
# region: chr1 300  400
#input/annoGrator/insertionsPrimary.bb.chrom	input/annoGrator/insertionsPrimary.bb.chromStart	input/annoGrator/insertionsPrimary.bb.chromEnd	input/annoGrator/insertionsPrimary.bb.name	input/annoGrator/insertionsSecondary.bb.chrom	input/annoGrator/insertionsSecondary.bb.chromStart	input/annoGrator/insertionsSecondary.bb.chromEnd	input/annoGrator/insertionsSecondary.bb.name
chr1	250	350	pr	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	320	justAfter
chr1	400	400	pi	chr1	380	400	jBInsPi
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	400	insPi
# region: chr1 400  500
#input/annoGrator/insertionsPrimary.bb.chrom	input/annoGrator/insertionsPrimary.bb.chromStart	input/annoGrator/insertionsPrimary.bb.chromEnd	input/annoGrator/insertionsPrimary.bb.name	input/annoGrator/insertionsSecondary.bb.chrom	input/annoGrator/insertionsSecondary.bb.chromStart	input/annoGrator/insertionsSecondary.bb.chromEnd	input/annoGrator/insertionsSecondary.bb.name
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	400	insPi
chr1	400	400	pi	chr1	400	420	jAInsPi
# BED tables
# region: chr1   0  500
#test.insertionsPrimary.chrom	test.insertionsPrimary.chromStart	test.insertionsPrimary.chromEnd	test.insertionsPrimary.name	test.insertionsSecondary.chrom	test.insertionsSecondary.chromStart	test.insertionsSecondary.chromEnd	test.insertionsSecondary.name
chr1	20	20	pil	chr1	19	20	jBPil
chr1	150	250	pl	chr1	150	200	justBefore
chr1	150	250	pl	chr1	200	200	insLeft
chr1	150	250	pl	chr1	220	230	inThere
chr1	200	300	p	chr1	200	200	insLeft
chr1	200	300	p	chr1	220	230	inThere
chr1	200	300	p	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	320	justAfter
chr1	250	350	pr	chr1	300	300	insRight
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	380	400	jBInsPi
chr1	400	400	pi	chr1	400	420	jAInsPi
chr1	400	400	pi	chr1	400	400	insPi
# region: chr1 100  200
#test.insertionsPrimary.chrom	test.insertionsPrimary.chromStart	test.insertionsPrimary.chromEnd	test.insertionsPrimary.name	test.insertionsSecondary.chrom	test.insertionsSecondary.chromStart	test.insertionsSecondary.chromEnd	test.insertionsSecondary.name
chr1	150	250	pl	chr1	150	200	justBefore
chr1	150	250	pl	chr1	200	200	insLeft
# region: chr1 200  300
#test.insertionsPrimary.chrom	test.insertionsPrimary.chromStart	test.insertionsPrimary.chromEnd	test.insertionsPrimary.name	test.insertionsSecondary.chrom	test.insertionsSecondary.chromStart	test.insertionsSecondary.chromEnd	test.insertionsSecondary.name
chr1	150	250	pl	chr1	200	200	insLeft
chr1	150	250	pl	chr1	220	230	inThere
chr1	200	300	p	chr1	200	200	insLeft
chr1	200	300	p	chr1	220	230	inThere
chr1	200	300	p	chr1	300	300	insRight
chr1	250	350	pr	chr1	300	300	insRight
# region: chr1 300  400
#test.insertionsPrimary.chrom	test.insertionsPrimary.chromStart	test.insertionsPrimary.chromEnd	test.insertionsPrimary.name	test.insertionsSecondary.chrom	test.insertionsSecondary.chromStart	test.insertionsSecondary.chromEnd	test.insertionsSecondary.name
chr1	250	350	pr	chr1	300	320	justAfter
chr1	250	350	pr	chr1	300	300	insRight
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	380	400	jBInsPi
chr1	400	400	pi	chr1	400	400	insPi
# region: chr1 400  500
#test.insertionsPrimary.chrom	test.insertionsPrimary.chromStart	test.insertionsPrimary.chromEnd	test.insertionsPrimary.name	test.insertionsSecondary.chrom	test.insertionsSecondary.chromStart	test.insertionsSecondary.chromEnd	test.insertionsSecondary.name
chr1	400	400	pi	chr1	380	420	aroundPi
chr1	400	400	pi	chr1	400	420	jAInsPi
chr1	400	400	pi	chr1	400	400	insPi
# VCF files (uncompressed)
# region: chr1   0  500
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.chrom	input/annoGrator/insertionsPrimary.vcf.pos	input/annoGrator/insertionsPrimary.vcf.id	input/annoGrator/insertionsPrimary.vcf.ref	input/annoGrator/insertionsPrimary.vcf.alt	input/annoGrator/insertionsPrimary.vcf.qual	input/annoGrator/insertionsPrimary.vcf.filter	input/annoGrator/insertionsPrimary.vcf.info	input/annoGrator/insertionsPrimary.vcf.format	input/annoGrator/insertionsPrimary.vcf.genotypes	input/annoGrator/insertionsSecondary.vcf.chrom	input/annoGrator/insertionsSecondary.vcf.pos	input/annoGrator/insertionsSecondary.vcf.id	input/annoGrator/insertionsSecondary.vcf.ref	input/annoGrator/insertionsSecondary.vcf.alt	input/annoGrator/insertionsSecondary.vcf.qual	input/annoGrator/insertionsSecondary.vcf.filter	input/annoGrator/insertionsSecondary.vcf.info	input/annoGrator/insertionsSecondary.vcf.format	input/annoGrator/insertionsSecondary.vcf.genotypes
chr1	20	pil	N	NA	1	PASS	.			chr1	20	jBPil	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	150	justBefore	<INS>	<DEL>	1	PASS	END=200		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	196	jBS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	jBS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	201	leftS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	201	leftS1	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	justAfter	<INS>	<DEL>	1	PASS	END=320		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS1	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	jBInsPi	<INS>	<DEL>	1	PASS	END=400		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	aroundPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	396	leftPiS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	leftPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	aroundPiS2	NN	AA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	insPi	N	NA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	jAInsPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS5	NNNNN	AAAAA	1	PASS	.		
# region: chr1 100  200
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.chrom	input/annoGrator/insertionsPrimary.vcf.pos	input/annoGrator/insertionsPrimary.vcf.id	input/annoGrator/insertionsPrimary.vcf.ref	input/annoGrator/insertionsPrimary.vcf.alt	input/annoGrator/insertionsPrimary.vcf.qual	input/annoGrator/insertionsPrimary.vcf.filter	input/annoGrator/insertionsPrimary.vcf.info	input/annoGrator/insertionsPrimary.vcf.format	input/annoGrator/insertionsPrimary.vcf.genotypes	input/annoGrator/insertionsSecondary.vcf.chrom	input/annoGrator/insertionsSecondary.vcf.pos	input/annoGrator/insertionsSecondary.vcf.id	input/annoGrator/insertionsSecondary.vcf.ref	input/annoGrator/insertionsSecondary.vcf.alt	input/annoGrator/insertionsSecondary.vcf.qual	input/annoGrator/insertionsSecondary.vcf.filter	input/annoGrator/insertionsSecondary.vcf.info	input/annoGrator/insertionsSecondary.vcf.format	input/annoGrator/insertionsSecondary.vcf.genotypes
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	150	justBefore	<INS>	<DEL>	1	PASS	END=200		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	196	jBS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	jBS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	insLeft	N	NA	1	PASS	.		
# region: chr1 200  300
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.chrom	input/annoGrator/insertionsPrimary.vcf.pos	input/annoGrator/insertionsPrimary.vcf.id	input/annoGrator/insertionsPrimary.vcf.ref	input/annoGrator/insertionsPrimary.vcf.alt	input/annoGrator/insertionsPrimary.vcf.qual	input/annoGrator/insertionsPrimary.vcf.filter	input/annoGrator/insertionsPrimary.vcf.info	input/annoGrator/insertionsPrimary.vcf.format	input/annoGrator/insertionsPrimary.vcf.genotypes	input/annoGrator/insertionsSecondary.vcf.chrom	input/annoGrator/insertionsSecondary.vcf.pos	input/annoGrator/insertionsSecondary.vcf.id	input/annoGrator/insertionsSecondary.vcf.ref	input/annoGrator/insertionsSecondary.vcf.alt	input/annoGrator/insertionsSecondary.vcf.qual	input/annoGrator/insertionsSecondary.vcf.filter	input/annoGrator/insertionsSecondary.vcf.info	input/annoGrator/insertionsSecondary.vcf.format	input/annoGrator/insertionsSecondary.vcf.genotypes
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	201	leftS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	201	leftS1	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	insRight	N	NA	1	PASS	.		
# region: chr1 300  400
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.chrom	input/annoGrator/insertionsPrimary.vcf.pos	input/annoGrator/insertionsPrimary.vcf.id	input/annoGrator/insertionsPrimary.vcf.ref	input/annoGrator/insertionsPrimary.vcf.alt	input/annoGrator/insertionsPrimary.vcf.qual	input/annoGrator/insertionsPrimary.vcf.filter	input/annoGrator/insertionsPrimary.vcf.info	input/annoGrator/insertionsPrimary.vcf.format	input/annoGrator/insertionsPrimary.vcf.genotypes	input/annoGrator/insertionsSecondary.vcf.chrom	input/annoGrator/insertionsSecondary.vcf.pos	input/annoGrator/insertionsSecondary.vcf.id	input/annoGrator/insertionsSecondary.vcf.ref	input/annoGrator/insertionsSecondary.vcf.alt	input/annoGrator/insertionsSecondary.vcf.qual	input/annoGrator/insertionsSecondary.vcf.filter	input/annoGrator/insertionsSecondary.vcf.info	input/annoGrator/insertionsSecondary.vcf.format	input/annoGrator/insertionsSecondary.vcf.genotypes
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	justAfter	<INS>	<DEL>	1	PASS	END=320		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS1	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	jBInsPi	<INS>	<DEL>	1	PASS	END=400		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	aroundPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	396	leftPiS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	leftPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	aroundPiS2	NN	AA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	insPi	N	NA	1	PASS	.		
# region: chr1 400  500
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.chrom	input/annoGrator/insertionsPrimary.vcf.pos	input/annoGrator/insertionsPrimary.vcf.id	input/annoGrator/insertionsPrimary.vcf.ref	input/annoGrator/insertionsPrimary.vcf.alt	input/annoGrator/insertionsPrimary.vcf.qual	input/annoGrator/insertionsPrimary.vcf.filter	input/annoGrator/insertionsPrimary.vcf.info	input/annoGrator/insertionsPrimary.vcf.format	input/annoGrator/insertionsPrimary.vcf.genotypes	input/annoGrator/insertionsSecondary.vcf.chrom	input/annoGrator/insertionsSecondary.vcf.pos	input/annoGrator/insertionsSecondary.vcf.id	input/annoGrator/insertionsSecondary.vcf.ref	input/annoGrator/insertionsSecondary.vcf.alt	input/annoGrator/insertionsSecondary.vcf.qual	input/annoGrator/insertionsSecondary.vcf.filter	input/annoGrator/insertionsSecondary.vcf.info	input/annoGrator/insertionsSecondary.vcf.format	input/annoGrator/insertionsSecondary.vcf.genotypes
chr1	400	pi	N	NA	1	PASS	.			chr1	380	aroundPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	aroundPiS2	NN	AA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	insPi	N	NA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	jAInsPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS5	NNNNN	AAAAA	1	PASS	.		
# VCF files (tabix)
# region: chr1   0  500
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.gz.chrom	input/annoGrator/insertionsPrimary.vcf.gz.pos	input/annoGrator/insertionsPrimary.vcf.gz.id	input/annoGrator/insertionsPrimary.vcf.gz.ref	input/annoGrator/insertionsPrimary.vcf.gz.alt	input/annoGrator/insertionsPrimary.vcf.gz.qual	input/annoGrator/insertionsPrimary.vcf.gz.filter	input/annoGrator/insertionsPrimary.vcf.gz.info	input/annoGrator/insertionsPrimary.vcf.gz.format	input/annoGrator/insertionsPrimary.vcf.gz.genotypes	input/annoGrator/insertionsSecondary.vcf.gz.chrom	input/annoGrator/insertionsSecondary.vcf.gz.pos	input/annoGrator/insertionsSecondary.vcf.gz.id	input/annoGrator/insertionsSecondary.vcf.gz.ref	input/annoGrator/insertionsSecondary.vcf.gz.alt	input/annoGrator/insertionsSecondary.vcf.gz.qual	input/annoGrator/insertionsSecondary.vcf.gz.filter	input/annoGrator/insertionsSecondary.vcf.gz.info	input/annoGrator/insertionsSecondary.vcf.gz.format	input/annoGrator/insertionsSecondary.vcf.gz.genotypes
chr1	20	pil	N	NA	1	PASS	.			chr1	20	jBPil	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	150	justBefore	<INS>	<DEL>	1	PASS	END=200		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	196	jBS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	jBS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	201	leftS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	201	leftS1	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	justAfter	<INS>	<DEL>	1	PASS	END=320		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS1	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	jBInsPi	<INS>	<DEL>	1	PASS	END=400		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	aroundPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	396	leftPiS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	leftPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	aroundPiS2	NN	AA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	insPi	N	NA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	jAInsPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS5	NNNNN	AAAAA	1	PASS	.		
# region: chr1 100  200
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.gz.chrom	input/annoGrator/insertionsPrimary.vcf.gz.pos	input/annoGrator/insertionsPrimary.vcf.gz.id	input/annoGrator/insertionsPrimary.vcf.gz.ref	input/annoGrator/insertionsPrimary.vcf.gz.alt	input/annoGrator/insertionsPrimary.vcf.gz.qual	input/annoGrator/insertionsPrimary.vcf.gz.filter	input/annoGrator/insertionsPrimary.vcf.gz.info	input/annoGrator/insertionsPrimary.vcf.gz.format	input/annoGrator/insertionsPrimary.vcf.gz.genotypes	input/annoGrator/insertionsSecondary.vcf.gz.chrom	input/annoGrator/insertionsSecondary.vcf.gz.pos	input/annoGrator/insertionsSecondary.vcf.gz.id	input/annoGrator/insertionsSecondary.vcf.gz.ref	input/annoGrator/insertionsSecondary.vcf.gz.alt	input/annoGrator/insertionsSecondary.vcf.gz.qual	input/annoGrator/insertionsSecondary.vcf.gz.filter	input/annoGrator/insertionsSecondary.vcf.gz.info	input/annoGrator/insertionsSecondary.vcf.gz.format	input/annoGrator/insertionsSecondary.vcf.gz.genotypes
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	150	justBefore	<INS>	<DEL>	1	PASS	END=200		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	196	jBS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	jBS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	insLeft	N	NA	1	PASS	.		
# region: chr1 200  300
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.gz.chrom	input/annoGrator/insertionsPrimary.vcf.gz.pos	input/annoGrator/insertionsPrimary.vcf.gz.id	input/annoGrator/insertionsPrimary.vcf.gz.ref	input/annoGrator/insertionsPrimary.vcf.gz.alt	input/annoGrator/insertionsPrimary.vcf.gz.qual	input/annoGrator/insertionsPrimary.vcf.gz.filter	input/annoGrator/insertionsPrimary.vcf.gz.info	input/annoGrator/insertionsPrimary.vcf.gz.format	input/annoGrator/insertionsPrimary.vcf.gz.genotypes	input/annoGrator/insertionsSecondary.vcf.gz.chrom	input/annoGrator/insertionsSecondary.vcf.gz.pos	input/annoGrator/insertionsSecondary.vcf.gz.id	input/annoGrator/insertionsSecondary.vcf.gz.ref	input/annoGrator/insertionsSecondary.vcf.gz.alt	input/annoGrator/insertionsSecondary.vcf.gz.qual	input/annoGrator/insertionsSecondary.vcf.gz.filter	input/annoGrator/insertionsSecondary.vcf.gz.info	input/annoGrator/insertionsSecondary.vcf.gz.format	input/annoGrator/insertionsSecondary.vcf.gz.genotypes
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	201	leftS1	N	A	1	PASS	.		
chr1	150	pl	<INS>	<DEL>	1	PASS	END=250			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	197	leftS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	200	insLeft	N	NA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	201	leftS1	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	220	inThere	<INS>	<DEL>	1	PASS	END=230		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	200	p	<INS>	<DEL>	1	PASS	END=300			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1a	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS1b	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	insRight	N	NA	1	PASS	.		
# region: chr1 300  400
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.gz.chrom	input/annoGrator/insertionsPrimary.vcf.gz.pos	input/annoGrator/insertionsPrimary.vcf.gz.id	input/annoGrator/insertionsPrimary.vcf.gz.ref	input/annoGrator/insertionsPrimary.vcf.gz.alt	input/annoGrator/insertionsPrimary.vcf.gz.qual	input/annoGrator/insertionsPrimary.vcf.gz.filter	input/annoGrator/insertionsPrimary.vcf.gz.info	input/annoGrator/insertionsPrimary.vcf.gz.format	input/annoGrator/insertionsPrimary.vcf.gz.genotypes	input/annoGrator/insertionsSecondary.vcf.gz.chrom	input/annoGrator/insertionsSecondary.vcf.gz.pos	input/annoGrator/insertionsSecondary.vcf.gz.id	input/annoGrator/insertionsSecondary.vcf.gz.ref	input/annoGrator/insertionsSecondary.vcf.gz.alt	input/annoGrator/insertionsSecondary.vcf.gz.qual	input/annoGrator/insertionsSecondary.vcf.gz.filter	input/annoGrator/insertionsSecondary.vcf.gz.info	input/annoGrator/insertionsSecondary.vcf.gz.format	input/annoGrator/insertionsSecondary.vcf.gz.genotypes
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	rightS5	NNNNN	AAAAA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	insRight	N	NA	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	300	justAfter	<INS>	<DEL>	1	PASS	END=320		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS1	N	A	1	PASS	.		
chr1	250	pr	<INS>	<DEL>	1	PASS	END=350			chr1	301	jAS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	jBInsPi	<INS>	<DEL>	1	PASS	END=400		
chr1	400	pi	N	NA	1	PASS	.			chr1	380	aroundPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	396	leftPiS5	NNNNN	AAAAA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	leftPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	aroundPiS2	NN	AA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	insPi	N	NA	1	PASS	.		
# region: chr1 400  500
# Header from primary input:
##fileformat=VCFv4.0
#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO    
#input/annoGrator/insertionsPrimary.vcf.gz.chrom	input/annoGrator/insertionsPrimary.vcf.gz.pos	input/annoGrator/insertionsPrimary.vcf.gz.id	input/annoGrator/insertionsPrimary.vcf.gz.ref	input/annoGrator/insertionsPrimary.vcf.gz.alt	input/annoGrator/insertionsPrimary.vcf.gz.qual	input/annoGrator/insertionsPrimary.vcf.gz.filter	input/annoGrator/insertionsPrimary.vcf.gz.info	input/annoGrator/insertionsPrimary.vcf.gz.format	input/annoGrator/insertionsPrimary.vcf.gz.genotypes	input/annoGrator/insertionsSecondary.vcf.gz.chrom	input/annoGrator/insertionsSecondary.vcf.gz.pos	input/annoGrator/insertionsSecondary.vcf.gz.id	input/annoGrator/insertionsSecondary.vcf.gz.ref	input/annoGrator/insertionsSecondary.vcf.gz.alt	input/annoGrator/insertionsSecondary.vcf.gz.qual	input/annoGrator/insertionsSecondary.vcf.gz.filter	input/annoGrator/insertionsSecondary.vcf.gz.info	input/annoGrator/insertionsSecondary.vcf.gz.format	input/annoGrator/insertionsSecondary.vcf.gz.genotypes
chr1	400	pi	N	NA	1	PASS	.			chr1	380	aroundPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	aroundPiS2	NN	AA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	insPi	N	NA	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	400	jAInsPi	<INS>	<DEL>	1	PASS	END=420		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS1	N	A	1	PASS	.		
chr1	400	pi	N	NA	1	PASS	.			chr1	401	rightPiS5	NNNNN	AAAAA	1	PASS	.		
