@HD VN:1.4 SO:coordinate @RG ID:21618_3#3 PL:ILLUMINA PU:170105_HS34_21618_A_CA5NWANXX_3#3 LB:18153223 DS:EGAS00001002059: The aim of the project is the definition of the molecular defect in a cohort of Rett-like patients negative for mutations in known disease genes. To this aim, a number of unrelated trios (patients plus parents) will be analysed by exome sequencing. This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/ DT:2017-01-05T00:00:00+0000 PG:SCS SM:EGAN00001451924 CN:SC @PG ID:SCS PN:RTA VN:1.18.66.3 DS:Controlling software on instrument @PG ID:basecalling PN:RTA PP:SCS VN:1.18.66.3 DS:Basecalling Package @PG ID:bambi PN:bambi PP:basecalling VN:0.9.4 DS:Convert Illumina BCL to BAM or SAM file CL:/software/solexa/pkg/bambi/0.9.4/bin/bambi i2b --intensity-dir=/nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities --basecalls-dir=/nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BaseCalls --lane=3 --platform-unit=170105_HS34_21618_A_CA5NWANXX_3 --read-group-id=21618_3 --study-name="EGAS00001002059: The aim of the project is the definition of the molecular defect in a cohort of Rett-like patients negative for mutations in known disease genes. To this aim, a number of unrelated trios (patients plus parents) will be analysed by exome sequencing. This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/" --sample-alias=EGAN00001451908,EGAN00001451889,EGAN00001451924,EGAN00001451890,EGAN00001451909,EGAN00001451891,EGAN00001451925,EGAN00001451892 --output-file=- --compression-level=0 @PG ID:bamadapterfind PN:bamadapterfind PP:bambi VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamadapterfind level=0 @PG ID:bambi.1 PN:bambi PP:bamadapterfind VN:0.9.4 CL:/software/solexa/pkg/bambi/0.9.4/bin/bambi decode --metrics-file /nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/21618_3.bam.tag_decode.metrics --barcode-file /nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/metadata_cache_21618/lane_3.taglist --compression-level 0 - @PG ID:bamcollate2 PN:bamcollate2 PP:bambi.1 VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamcollate2 collate=2 level=0 @PG ID:bwa PN:bwa PP:bamcollate2 VN:0.7.15-r1140 CL:/software/solexa/pkg/bwa/0.7.15/bwa sampe /lustre/scratch110/srpipe/references/PhiX/Sanger-SNPs/all/bwa0_6/phix_unsnipped_short_no_N.fa /tmp/YueCmVbgvl/alnphix_bwa_aln_1_out /tmp/nuM_2OOwEH/alnphix_bwa_aln_2_out /tmp/gi4IMybvTK/alnphix_simple_cat1_out /tmp/Iy0X9Cs30a/alnphix_simple_cat2_out @PG ID:scramble PN:scramble PP:bwa VN:1.14.8 CL:/software/solexa/pkg/scramble/1.14.8/bin/scramble -0 -t 2 -I sam -O bam @PG ID:bam12auxmerge PN:bam12auxmerge PP:scramble VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bam12auxmerge level=0 rankstrip=1 ranksplit=1 zztoname=0 clipreinsert=1 /tmp/nfpvvU2ZNn/simple_cat_out @PG ID:scramble.1 PN:scramble PP:bam12auxmerge VN:1.14.8 CL:/software/solexa/pkg/scramble/1.14.8/bin/scramble -I bam -O cram -x -3 @PG ID:scramble.2 PN:scramble PP:scramble.1 VN:1.14.8 CL:/software/solexa/pkg/scramble/1.14.8/bin/scramble -I cram -O bam -0 @PG ID:spf PN:spatial_filter PP:scramble.2 DS:A program to apply a spatial filter VN:v10.27-dirty CL:/software/solexa/pkg/pb_calibration/10.27/bin/spatial_filter -c -F /dev/stdout -t /nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/no_cal/archive/qc/tileviz/21618_3 --region_size 200 --region_mismatch_threshold 0.0160 --region_insertion_threshold 0.0160 --region_deletion_threshold 0.0160 /dev/stdin ; /software/solexa/pkg/pb_calibration/10.27/bin/spatial_filter -a -f -u -l /nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/no_cal/21618_3.bam.filter.stats -F /tmp/YgzPs2R21G/tee_post_filter_creation:__APPLY_FILTER_OUT___out /dev/stdin @PG ID:samtools PN:samtools PP:spf VN:1.3.1-npg-Sep2016 CL:/software/solexa/pkg/samtools/1.3.1-npg-Dec2016/bin/samtools split -f /nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/no_cal/lane3/%!.bam - @PG ID:bamcollate2' PN:bamcollate2 PP:samtools VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamcollate2 collate=1 level=0 @PG ID:bamreset PN:bamreset PP:bamcollate2' VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamreset resetaux=0 level=0 verbose=0 @PG ID:bamadapterclip PN:bamadapterclip PP:bamreset VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamadapterclip verbose=0 level=0 @PG ID:bwa' PN:bwa PP:bamadapterclip VN:0.7.15-r1140 CL:/software/solexa/pkg/bwa/0.7.15/bwa mem -t 16 -p -Y -K 100000000 /lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/bwa0_6/Homo_sapiens.GRCh38_15.fa /tmp/wPnHOlzfga/alntgt_bamtofastq_out @PG ID:scramble' PN:scramble PP:bwa' VN:1.14.8 CL:/software/solexa/pkg/scramble/1.14.8/bin/scramble -0 -I sam -O bam @PG ID:samtools' PN:samtools PP:scramble' VN:1.3.1-npg-Sep2016 CL:/software/solexa/pkg/samtools/1.3.1-npg-Dec2016/bin/samtools reheader /tmp/hfkoeAgVo1/postalntgt_alterSQ_headerSQfix_out /tmp/rmQnHhwimW/postalntgt_mbuffer_headerSQfix_out @PG ID:bam12split PN:bam12split PP:samtools' VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bam12split verbose=0 level=0 @PG ID:bamsormadup PN:bamsormadup PP:bam12split VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamsormadup threads=16 SO=queryname level=0 @PG ID:bam12auxmerge' PN:bam12auxmerge PP:bamsormadup VN:2.0.65 CL:/software/solexa/pkg/biobambam/2.0.65/bin/bam12auxmerge level=0 rankstrip=1 ranksplit=0 zztoname=0 clipreinsert=1 /tmp/8Gn4xZkmzK/amp_bamadapterclip_pre_auxmerge_out @PG ID:AlignmentFilter PN:AlignmentFilter PP:bam12auxmerge' DS:Give a list of SAM/BAM files with the same set of records and in the same order but aligned with different references, split reads into different files according to alignments. You have option to put unaligned reads into one of output files or a separate file VN:V1.19 CL:uk.ac.sanger.npg.picard.AlignmentFilter INPUT_ALIGNMENT=[./initial_phix_aln_21618_3#3.bam, /tmp/pQg6yUpElp/postalntgt_bam12auxmerge_out] OUTPUT_ALIGNMENT=[/tmp/PnGT9VCfRG/alignment_filter:__PHIX_BAM_OUT___out, /dev/stdout] METRICS_FILE=21618_3#3.bam_alignment_filter_metrics.json VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=SILENT COMPRESSION_LEVEL=0 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false @PG ID:bamsormadup' PN:bamsormadup CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamsormadup threads=16 SO=coordinate level=0 verbose=0 fixmate=1 adddupmarksupport=1 tmpfile=/nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/no_cal/archive/lane3/bsfopt_21618_3#3.tmp PP:AlignmentFilter VN:2.0.65 @PG ID:bamstreamingmarkduplicates PN:bamstreamingmarkduplicates CL:/software/solexa/pkg/biobambam/2.0.65/bin/bamstreamingmarkduplicates level=0 verbose=0 tmpfile=/nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/no_cal/archive/lane3/bmdfopt_21618_3#3.tmp M=/nfs/sf50/ILorHSany_sf50/analysis/170105_HS34_21618_A_CA5NWANXX/Data/Intensities/BAM_basecalls_20170108-043349/no_cal/archive/lane3/21618_3#3.markdups_metrics.txt PP:bamsormadup' VN:2.0.65 @PG ID:scramble.3 PN:scramble PP:bamstreamingmarkduplicates VN:1.14.8 CL:/software/solexa/pkg/scramble/1.14.8/bin/scramble -t 7 -7 -I bam -O cram -r /lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa @CO TY:checksum ST:all PA:all HA:crc32prod CO:55360758 BS:5feec676 NS:5aa5b945 SQ:19e6a1 ST:BC,FI,QT,RT,TC:6ddd9eb @CO TY:checksum ST:all PA:pass HA:crc32prod CO:55356178 BS:11d4aa66 NS:47e25ccf SQ:3c3974b ST:BC,FI,QT,RT,TC:4ada891b @CO TY:checksum ST: PA:all HA:crc32prod CO:0 BS:1 NS:1 SQ:1 ST:BC,FI,QT,RT,TC:1 @CO TY:checksum ST: PA:pass HA:crc32prod CO:0 BS:1 NS:1 SQ:1 ST:BC,FI,QT,RT,TC:1 @CO TY:checksum ST:21618_3#3 PA:all HA:crc32prod CO:55360758 BS:5feec676 NS:5aa5b945 SQ:19e6a1 ST:BC,FI,QT,RT,TC:6ddd9eb @CO TY:checksum ST:21618_3#3 PA:pass HA:crc32prod CO:55356178 BS:11d4aa66 NS:47e25ccf SQ:3c3974b ST:BC,FI,QT,RT,TC:4ada891b @SQ SN:chr1 LN:248956422 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:6aef897c3d6ff0c78aff06ac189178dd SP:Human @SQ SN:chr2 LN:242193529 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:f98db672eb0993dcfdabafe2a882905c SP:Human @SQ SN:chr3 LN:198295559 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:76635a41ea913a405ded820447d067b0 SP:Human @SQ SN:chr4 LN:190214555 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:3210fecf1eb92d5489da4346b3fddc6e SP:Human @SQ SN:chr5 LN:181538259 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:a811b3dc9fe66af729dc0dddf7fa4f13 SP:Human @SQ SN:chr6 LN:170805979 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:5691468a67c7e7a7b5f2a3a683792c29 SP:Human @SQ SN:chr7 LN:159345973 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:cc044cc2256a1141212660fb07b6171e SP:Human @SQ SN:chr8 LN:145138636 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:c67955b5f7815a9a1edfaa15893d3616 SP:Human @SQ SN:chr9 LN:138394717 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:6c198acf68b5af7b9d676dfdd531b5de SP:Human @SQ SN:chr10 LN:133797422 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:c0eeee7acfdaf31b770a509bdaa6e51a SP:Human @SQ SN:chr11 LN:135086622 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1511375dc2dd1b633af8cf439ae90cec SP:Human @SQ SN:chr12 LN:133275309 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:96e414eace405d8c27a6d35ba19df56f SP:Human @SQ SN:chr13 LN:114364328 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:a5437debe2ef9c9ef8f3ea2874ae1d82 SP:Human @SQ SN:chr14 LN:107043718 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:e0f0eecc3bcab6178c62b6211565c807 SP:Human @SQ SN:chr15 LN:101991189 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:f036bd11158407596ca6bf3581454706 SP:Human @SQ SN:chr16 LN:90338345 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:db2d37c8b7d019caaf2dd64ba3a6f33a SP:Human @SQ SN:chr17 LN:83257441 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:f9a0fb01553adb183568e3eb9d8626db SP:Human @SQ SN:chr18 LN:80373285 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:11eeaa801f6b0e2e36a1138616b8ee9a SP:Human @SQ SN:chr19 LN:58617616 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:85f9f4fc152c58cb7913c06d6b98573a SP:Human @SQ SN:chr20 LN:64444167 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:b18e6c531b0bd70e949a7fc20859cb01 SP:Human @SQ SN:chr21 LN:46709983 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:974dc7aec0b755b19f031418fdedf293 SP:Human @SQ SN:chr22 LN:50818468 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:ac37ec46683600f808cdd41eac1d55cd SP:Human @SQ SN:chrX LN:156040895 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:2b3a55ff7f58eb308420c8a9b11cac50 SP:Human @SQ SN:chrY LN:57227415 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:ce3e31103314a704255f3cd90369ecce SP:Human @SQ SN:chrM LN:16569 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:c68f52674c9fb33aef52dcf399755519 SP:Human @SQ SN:chr1_KI270706v1_random LN:175055 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:62def1a794b3e18192863d187af956e6 SP:Human @SQ SN:chr1_KI270707v1_random LN:32032 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:78135804eb15220565483b7cdd02f3be SP:Human @SQ SN:chr1_KI270708v1_random LN:127682 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1e95e047b98ed92148dd84d6c037158c SP:Human @SQ SN:chr1_KI270709v1_random LN:66860 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:4e2db2933ea96aee8dab54af60ecb37d SP:Human @SQ SN:chr1_KI270710v1_random LN:40176 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:9949f776680c6214512ee738ac5da289 SP:Human @SQ SN:chr1_KI270711v1_random LN:42210 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:af383f98cf4492c1f1c4e750c26cbb40 SP:Human @SQ SN:chr1_KI270712v1_random LN:176043 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:c38a0fecae6a1838a405406f724d6838 SP:Human @SQ SN:chr1_KI270713v1_random LN:40745 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:cb78d48cc0adbc58822a1c6fe89e3569 SP:Human @SQ SN:chr1_KI270714v1_random LN:41717 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:42f7a452b8b769d051ad738ee9f00631 SP:Human @SQ SN:chr2_KI270715v1_random LN:161471 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:b65a8af1d7bbb7f3c77eea85423452bb SP:Human @SQ SN:chr2_KI270716v1_random LN:153799 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UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:b0c463c8efa8d64442b48e936368dad5 SP:Human @SQ SN:chr9_KI270719v1_random LN:176845 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:cd5e932cfc4c74d05bb64e2126873a3a SP:Human @SQ SN:chr9_KI270720v1_random LN:39050 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:8c2683400a4aeeb40abff96652b9b127 SP:Human @SQ SN:chr11_KI270721v1_random LN:100316 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:9654b5d3f36845bb9d19a6dbd15d2f22 SP:Human @SQ SN:chr14_GL000009v2_random LN:201709 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:862f555045546733591ff7ab15bcecbe SP:Human @SQ SN:chr14_GL000225v1_random LN:211173 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UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1d17410ae2569c758e6dd51616412d32 SP:Human @SQ SN:chr22_KI270735v1_random LN:42811 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:eb6b07b73dd9a47252098ed3d9fb78b8 SP:Human @SQ SN:chr22_KI270736v1_random LN:181920 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:2ff189f33cfa52f321accddf648c5616 SP:Human @SQ SN:chr22_KI270737v1_random LN:103838 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:2ea8bc113a8193d1d700b584b2c5f42a SP:Human @SQ SN:chr22_KI270738v1_random LN:99375 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:854ec525c7b6a79e7268f515b6a9877c SP:Human @SQ SN:chr22_KI270739v1_random LN:73985 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:760fbd73515fedcc9f37737c4a722d6a SP:Human @SQ SN:chrY_KI270740v1_random LN:37240 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:69e42252aead509bf56f1ea6fda91405 SP:Human @SQ SN:chrUn_KI270302v1 LN:2274 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:ee6dff38036f7d03478c70717643196e SP:Human @SQ SN:chrUn_KI270304v1 LN:2165 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:9423c1b46a48aa6331a77ab5c702ac9d SP:Human @SQ SN:chrUn_KI270303v1 LN:1942 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:2cb746c78e0faa11e628603a4bc9bd58 SP:Human @SQ SN:chrUn_KI270305v1 LN:1472 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:f9acea3395b6992cf3418b6689b98cf9 SP:Human @SQ SN:chrUn_KI270322v1 LN:21476 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:7d459255d1c54369e3b64e719061a5a5 SP:Human @SQ SN:chrUn_KI270320v1 LN:4416 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:d898b9c5a0118e76481bf5695272959e SP:Human @SQ SN:chrUn_KI270310v1 LN:1201 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:af6cb123af7007793bac06485a2a20e9 SP:Human @SQ SN:chrUn_KI270316v1 LN:1444 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:6adde7a9fe7bd6918f12d0f0924aa8ba SP:Human @SQ SN:chrUn_KI270315v1 LN:2276 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:ecc43e822dc011fae1fcfd9981c46e9c SP:Human @SQ SN:chrUn_KI270312v1 LN:998 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:26499f2fe4c65621fd8f4ecafbad31d7 SP:Human @SQ SN:chrUn_KI270311v1 LN:12399 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:59594f9012d8ce21ed5d1119c051a2ba SP:Human @SQ SN:chrUn_KI270317v1 LN:37690 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:cd4b1fda800f6ec9ea8001994dbf6499 SP:Human @SQ SN:chrUn_KI270412v1 LN:1179 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:7bb9612f733fb7f098be79499d46350c SP:Human @SQ SN:chrUn_KI270411v1 LN:2646 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:fc240322d91d43c04f349cc58fda3eca SP:Human @SQ SN:chrUn_KI270414v1 LN:2489 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:753e02ef3b1c590e0e3376ad2ebb5836 SP:Human @SQ SN:chrUn_KI270419v1 LN:1029 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:58455e7a788f0dc82034d1fb109f6f5c SP:Human @SQ SN:chrUn_KI270418v1 LN:2145 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1537ec12b9c58d137a2d4cb9db896bbc SP:Human @SQ SN:chrUn_KI270420v1 LN:2321 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:bac954a897539c91982a7e3985a49910 SP:Human @SQ SN:chrUn_KI270424v1 LN:2140 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:747c8f94f34d5de4ad289bc604708210 SP:Human @SQ SN:chrUn_KI270417v1 LN:2043 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:cd26758fda713f9c96e51d541f50c2d0 SP:Human @SQ SN:chrUn_KI270422v1 LN:1445 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:3fce80eb4c0554376b591699031feb56 SP:Human @SQ SN:chrUn_KI270423v1 LN:981 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:bdf5a85c001731dccfb150db2bfe58ac SP:Human @SQ SN:chrUn_KI270425v1 LN:1884 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:665a46879bbb48294b0cfa87b61e71f6 SP:Human @SQ SN:chrUn_KI270429v1 LN:1361 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:ee8962dbef9396884f649e566b78bf06 SP:Human @SQ SN:chrUn_KI270442v1 LN:392061 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:796289c4cda40e358991f9e672490015 SP:Human @SQ SN:chrUn_KI270466v1 LN:1233 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:530b7033716a5d72dd544213c513fd12 SP:Human @SQ SN:chrUn_KI270465v1 LN:1774 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:bb1b2323414425c46531b3c3d22ae00d SP:Human @SQ SN:chrUn_KI270467v1 LN:3920 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:db34e0dc109a4afd499b5ec6aaae9754 SP:Human @SQ SN:chrUn_KI270435v1 LN:92983 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1655c75415b9c29e143a815f44286d05 SP:Human @SQ SN:chrUn_KI270438v1 LN:112505 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:e765271939b854dd6826aa764e930c87 SP:Human @SQ SN:chrUn_KI270468v1 LN:4055 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:0a603090f06108ed7aff75df0767b822 SP:Human @SQ SN:chrUn_KI270510v1 LN:2415 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:cd7348b3b5d9d0dfef6aed2af75ce920 SP:Human @SQ SN:chrUn_KI270509v1 LN:2318 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1cdeb8c823d839e1d1735b5bc9a14856 SP:Human @SQ SN:chrUn_KI270518v1 LN:2186 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:3fd898b62ca859f50fb8b83e7706352b SP:Human @SQ SN:chrUn_KI270508v1 LN:1951 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:7d42a358d472b9cbdfdf30c8742473d0 SP:Human @SQ SN:chrUn_KI270516v1 LN:1300 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1cbaaafbbf016906a5bf5886f5a0ecb7 SP:Human @SQ SN:chrUn_KI270512v1 LN:22689 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:ba1021c82d1230af856f59079e2f71b4 SP:Human @SQ SN:chrUn_KI270519v1 LN:138126 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:8d754e9c9afd904fba0a2cd577fcc9a1 SP:Human @SQ SN:chrUn_KI270522v1 LN:5674 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UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:b06e44ea15d0a57618d6ca7d2e6ac5d2 SP:Human @SQ SN:chrUn_KI270392v1 LN:971 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:59b3ca8de65fb171683f8a06d3b4bf0d SP:Human @SQ SN:chrUn_KI270381v1 LN:1930 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:2a9297cfd3b3807195ab9ad07e775d99 SP:Human @SQ SN:chrUn_KI270385v1 LN:990 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:112a8b1df94ef0498a0bfe2d2ea5cc23 SP:Human @SQ SN:chrUn_KI270382v1 LN:4215 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:e7085cdcee6ad62f359744e13d3209fc SP:Human @SQ SN:chrUn_KI270376v1 LN:1136 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:59e8fc80b78d62325082334b43dffdba SP:Human @SQ SN:chrUn_KI270374v1 LN:2656 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:dbc92c9a92e558946e58b4909ec95dd5 SP:Human @SQ SN:chrUn_KI270372v1 LN:1650 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:53a9d5e8fd28bce5da5efcfd9114dbf2 SP:Human @SQ SN:chrUn_KI270373v1 LN:1451 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:b174fe53be245a840cd6324e39b88ced SP:Human @SQ SN:chrUn_KI270375v1 LN:2378 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:d678250c97e9b94aa390fa46e70a6d83 SP:Human @SQ SN:chrUn_KI270371v1 LN:2805 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:a0af3d778dfeb7963e8e6d84c0c54fba SP:Human @SQ SN:chrUn_KI270448v1 LN:7992 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:0f40827c265cb813b6e723da6c9b926b SP:Human @SQ SN:chrUn_KI270521v1 LN:7642 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:af5bef7cefec7bd7efa729ac6c5be088 SP:Human @SQ SN:chrUn_GL000195v1 LN:182896 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:5d9ec007868d517e73543b005ba48535 SP:Human @SQ SN:chrUn_GL000219v1 LN:179198 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:f977edd13bac459cb2ed4a5457dba1b3 SP:Human @SQ SN:chrUn_GL000220v1 LN:161802 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:fc35de963c57bf7648429e6454f1c9db SP:Human @SQ SN:chrUn_GL000224v1 LN:179693 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:d5b2fc04f6b41b212a4198a07f450e20 SP:Human @SQ SN:chrUn_KI270741v1 LN:157432 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:86eaea8a15a3950e37442eaaa5c9dc92 SP:Human @SQ SN:chrUn_GL000226v1 LN:15008 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1c1b2cd1fccbc0a99b6a447fa24d1504 SP:Human @SQ SN:chrUn_GL000213v1 LN:164239 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:9d424fdcc98866650b58f004080a992a SP:Human @SQ SN:chrUn_KI270743v1 LN:210658 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:3b62d9d3100f530d509e4efebd98502c SP:Human @SQ SN:chrUn_KI270744v1 LN:168472 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:e90aee46b947ff8c32291a6843fde3f9 SP:Human @SQ SN:chrUn_KI270745v1 LN:41891 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:1386fe3de6f82956f2124e19353ff9c1 SP:Human @SQ SN:chrUn_KI270746v1 LN:66486 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:c470486a0a858e14aa21d7866f83cc17 SP:Human @SQ SN:chrUn_KI270747v1 LN:198735 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:62375d812ece679c9fd2f3d08d4e22a4 SP:Human @SQ SN:chrUn_KI270748v1 LN:93321 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UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:25075fb2a1ecada67c0eb2f1fe0c7ec9 SP:Human @SQ SN:chrUn_KI270754v1 LN:40191 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:fe9e16233cecbc244f06f3acff3d03b8 SP:Human @SQ SN:chrUn_KI270755v1 LN:36723 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:4a7da6a658955bd787af8add3ccb5751 SP:Human @SQ SN:chrUn_KI270756v1 LN:79590 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:2996b120a5a5e15dab6555f0bf92e374 SP:Human @SQ SN:chrUn_KI270757v1 LN:71251 UR:/lustre/scratch110/srpipe/references/Homo_sapiens/GRCh38_15/all/fasta/Homo_sapiens.GRCh38_15.fa AS:GRCh38 M5:174c73b60b41d8a1ef0fbaa4b3bdf0d3 SP:Human @SQ SN:chrUn_GL000214v1 LN:137718 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