@HD	VN:1.4	GO:none	SO:coordinate
@SQ	SN:1	LN:249250621
@SQ	SN:2	LN:243199373
@SQ	SN:3	LN:198022430
@SQ	SN:4	LN:191154276
@SQ	SN:5	LN:180915260
@SQ	SN:6	LN:171115067
@SQ	SN:7	LN:159138663
@SQ	SN:8	LN:146364022
@SQ	SN:9	LN:141213431
@SQ	SN:10	LN:135534747
@SQ	SN:11	LN:135006516
@SQ	SN:12	LN:133851895
@SQ	SN:13	LN:115169878
@SQ	SN:14	LN:107349540
@SQ	SN:15	LN:102531392
@SQ	SN:16	LN:90354753
@SQ	SN:17	LN:81195210
@SQ	SN:18	LN:78077248
@SQ	SN:19	LN:59128983
@SQ	SN:20	LN:63025520
@SQ	SN:21	LN:48129895
@SQ	SN:22	LN:51304566
@SQ	SN:X	LN:155270560
@SQ	SN:Y	LN:59373566
@SQ	SN:MT	LN:16569
@SQ	SN:GL000207.1	LN:4262
@SQ	SN:GL000226.1	LN:15008
@SQ	SN:GL000229.1	LN:19913
@SQ	SN:GL000231.1	LN:27386
@SQ	SN:GL000210.1	LN:27682
@SQ	SN:GL000239.1	LN:33824
@SQ	SN:GL000235.1	LN:34474
@SQ	SN:GL000201.1	LN:36148
@SQ	SN:GL000247.1	LN:36422
@SQ	SN:GL000245.1	LN:36651
@SQ	SN:GL000197.1	LN:37175
@SQ	SN:GL000203.1	LN:37498
@SQ	SN:GL000246.1	LN:38154
@SQ	SN:GL000249.1	LN:38502
@SQ	SN:GL000196.1	LN:38914
@SQ	SN:GL000248.1	LN:39786
@SQ	SN:GL000244.1	LN:39929
@SQ	SN:GL000238.1	LN:39939
@SQ	SN:GL000202.1	LN:40103
@SQ	SN:GL000234.1	LN:40531
@SQ	SN:GL000232.1	LN:40652
@SQ	SN:GL000206.1	LN:41001
@SQ	SN:GL000240.1	LN:41933
@SQ	SN:GL000236.1	LN:41934
@SQ	SN:GL000241.1	LN:42152
@SQ	SN:GL000243.1	LN:43341
@SQ	SN:GL000242.1	LN:43523
@SQ	SN:GL000230.1	LN:43691
@SQ	SN:GL000237.1	LN:45867
@SQ	SN:GL000233.1	LN:45941
@SQ	SN:GL000204.1	LN:81310
@SQ	SN:GL000198.1	LN:90085
@SQ	SN:GL000208.1	LN:92689
@SQ	SN:GL000191.1	LN:106433
@SQ	SN:GL000227.1	LN:128374
@SQ	SN:GL000228.1	LN:129120
@SQ	SN:GL000214.1	LN:137718
@SQ	SN:GL000221.1	LN:155397
@SQ	SN:GL000209.1	LN:159169
@SQ	SN:GL000218.1	LN:161147
@SQ	SN:GL000220.1	LN:161802
@SQ	SN:GL000213.1	LN:164239
@SQ	SN:GL000211.1	LN:166566
@SQ	SN:GL000199.1	LN:169874
@SQ	SN:GL000217.1	LN:172149
@SQ	SN:GL000216.1	LN:172294
@SQ	SN:GL000215.1	LN:172545
@SQ	SN:GL000205.1	LN:174588
@SQ	SN:GL000219.1	LN:179198
@SQ	SN:GL000224.1	LN:179693
@SQ	SN:GL000223.1	LN:180455
@SQ	SN:GL000195.1	LN:182896
@SQ	SN:GL000212.1	LN:186858
@SQ	SN:GL000222.1	LN:186861
@SQ	SN:GL000200.1	LN:187035
@SQ	SN:GL000193.1	LN:189789
@SQ	SN:GL000194.1	LN:191469
@SQ	SN:GL000225.1	LN:211173
@SQ	SN:GL000192.1	LN:547496
@RG	ID:mother	PU:UNKNOWN	LB:UNKNOWN	SM:mother	PL:PACBIO
@RG	ID:father	PU:UNKNOWN	LB:UNKNOWN	SM:father	PL:PACBIO
@PG	ID:GATK TableRecalibration	VN:1.0.5069	CL:default_read_group=null default_platform=null force_read_group=null force_platform=null window_size_nqs=5 homopolymer_nback=7 exception_if_no_tile=false solid_recal_mode=SET_Q_ZERO solid_nocall_strategy=THROW_EXCEPTION recal_file=/target/gpfs2/gcc/from_millipede/fourth_batch/mother/mother.FC81999ABXX_L6.al10.covariates_before.ftl.human_g1k_v37.matefixed.covariate_table.csv output_bam=null preserve_qscores_less_than=5 smoothing=1 max_quality_score=50 no_pg_tag=false fail_with_no_eof_marker=false skipUQUpdate=false Covariates=[ReadGroupCovariate, QualityScoreCovariate, CycleCovariate, DinucCovariate] 
@PG	ID:GATK TableRecalibration.1	VN:1.0.5069	CL:default_read_group=null default_platform=null force_read_group=null force_platform=null window_size_nqs=5 homopolymer_nback=7 exception_if_no_tile=false solid_recal_mode=SET_Q_ZERO solid_nocall_strategy=THROW_EXCEPTION recal_file=/target/gpfs2/gcc/from_millipede/fourth_batch/mother/mother.FC81986ABXX_L6.al10.covariates_before.ftl.human_g1k_v37.matefixed.covariate_table.csv output_bam=null preserve_qscores_less_than=5 smoothing=1 max_quality_score=50 no_pg_tag=false fail_with_no_eof_marker=false skipUQUpdate=false Covariates=[ReadGroupCovariate, QualityScoreCovariate, CycleCovariate, DinucCovariate] 
@PG	ID:GATK TableRecalibration.1.1	VN:1.0.5069	CL:default_read_group=null default_platform=null force_read_group=null force_platform=null window_size_nqs=5 homopolymer_nback=7 exception_if_no_tile=false solid_recal_mode=SET_Q_ZERO solid_nocall_strategy=THROW_EXCEPTION recal_file=/target/gpfs2/gcc/from_millipede/fourth_batch/father/father.FC81986ABXX_L7.al10.covariates_before.ftl.human_g1k_v37.matefixed.covariate_table.csv output_bam=null preserve_qscores_less_than=5 smoothing=1 max_quality_score=50 no_pg_tag=false fail_with_no_eof_marker=false skipUQUpdate=false Covariates=[ReadGroupCovariate, QualityScoreCovariate, CycleCovariate, DinucCovariate] 
@PG	ID:GATK TableRecalibration.3	VN:1.0.5069	CL:default_read_group=null default_platform=null force_read_group=null force_platform=null window_size_nqs=5 homopolymer_nback=7 exception_if_no_tile=false solid_recal_mode=SET_Q_ZERO solid_nocall_strategy=THROW_EXCEPTION recal_file=/target/gpfs2/gcc/from_millipede/fourth_batch/father/father.FC81999ABXX_L7.al10.covariates_before.ftl.human_g1k_v37.matefixed.covariate_table.csv output_bam=null preserve_qscores_less_than=5 smoothing=1 max_quality_score=50 no_pg_tag=false fail_with_no_eof_marker=false skipUQUpdate=false Covariates=[ReadGroupCovariate, QualityScoreCovariate, CycleCovariate, DinucCovariate] 
A81999633#0	99	1	79978	0	90M	=	80355	466	ATGGAACCAAAAAAGAGCCCACATAGCCAAAGCAAGACTAAGCAAAAAGAATAAATCTAGAGGCATCACATTACTCGACTTCAAACTATA	CCCEEFBDDEEEEEDEDCCCDADDDCBCDEECCDDCDADDDCBDDDDDCDDCDDDCBDDCDCCBDCCDADBEDAEC;EBEECEFEBFEDC	X0:i:3	X1:i:1	XA:Z:6,+69982,90M,0;1,+79978,90M,0;15,-102452268,90M,1;	MD:Z:90	XG:i:0	AM:i:0	NM:i:0	SM:i:0	XM:i:0	XO:i:0	MQ:i:0	OQ:Z:ggggeggggggggfggggggggggfggggggeeggggggggggdgdgggggggegggggggegggeggde`ceddfggggggggegggge	XT:A:R	RG:Z:father
A8199963#0	163	1	80045	36	90M	=	80435	479	ACATTACTCGACTTCAAACTATACTATAAGGCCATAGTCACCAAAACAGCATGGTACTGGTATAAAAATAGGCATATAGACCAATGGAAT	?@CCDCBDC:EBDDCDDDADCBCADCBCDADCDBBCCBBDBCDEEDADCDCCCCBC@DCACCDCEDDDACCCBCCCCEAEBAEDDCCAFC	X0:i:4	X1:i:0	XA:Z:15,-102452201,90M,0;19,+121642,90M,0;6,+70049,90M,0;	MD:Z:90	XG:i:0	AM:i:0	NM:i:0	SM:i:0	XM:i:0	XO:i:0	MQ:i:37	OQ:Z:fdddddd_ccffeedeecddeaecdcadd_fcf__edeeffefffeffdfcddd`cbbcbecfcfddd_dceeededf_ff_gcecb]fe	XT:A:R	RG:Z:mother
A81999633#0	147	1	80355	0	90M	=	79978	-466	TAAAAATTCTAGAAGATAAGATTGGAAAAACCCTTCTAGACATTGGCTTAGGCAAAGACTTCACAATCAAGAACCCAAAAGCAAACACAA	DFEGFDDDDDEDEECCDEDCDEDCCEEDECCCCDECCDBCBCDCCBCDDDCBDEEDBCCEDCCCECDCEDCEBCDCEEEECCFFDCACE@	X0:i:3	X1:i:1	XA:Z:1,-80355,90M,0;19,-121952,90M,0;15,+102451891,90M,1;	MD:Z:90	XG:i:0	AM:i:0	NM:i:0	SM:i:0	XM:i:0	XO:i:0	MQ:i:0	OQ:Z:egcfgedafdgfgggeggggggdggggdgdggggfggggggggeggggggggfgggggggggegggggggggegggggggggggggcggg	XT:A:R	RG:Z:father
A8199963#0	83	1	80435	37	90M	=	80045	-479	GCAAACACAACAAAACAAAGATAAATAGATGGGACTTAATTAAACTGAAAGCCTTCTGCACATCAAAATAAATAATCAGCAGAGTAAACA	AAEFDCDDECCECDCCEDDCCBDECBDACDCCACCDCDCDCDDCCCCDDEBCCDDCDBCBCCDCEEEC>EEC@EDDCEC>E?EBDDDA@A	X0:i:1	X1:i:0	MD:Z:90	XG:i:0	AM:i:0	NM:i:0	SM:i:37	XM:i:0	XO:i:0	MQ:i:36	OQ:Z:aaeeeeedeeddddededecd^eceae^eaee^eeeebceebedeaebdceeddeecaeeeeedgeee^eee`eeeeeededeeedec_e	XT:A:U	RG:Z:mother
