BAM@HD VN:1.4 SO:unsorted @SQ SN:chr1 LN:249250621 @SQ SN:chr2 LN:243199373 @SQ SN:chr3 LN:198022430 @SQ SN:chr4 LN:191154276 @SQ SN:chr5 LN:180915260 @SQ SN:chr6 LN:171115067 @SQ SN:chr7 LN:159138663 @SQ SN:chr8 LN:146364022 @SQ SN:chr9 LN:141213431 @SQ SN:chr10 LN:135534747 @SQ SN:chr11 LN:135006516 @SQ SN:chr12 LN:133851895 @SQ SN:chr13 LN:115169878 @SQ SN:chr14 LN:107349540 @SQ SN:chr15 LN:102531392 @SQ SN:chr16 LN:90354753 @SQ SN:chr17 LN:81195210 @SQ SN:chr18 LN:78077248 @SQ SN:chr19 LN:59128983 @SQ SN:chr20 LN:63025520 @SQ SN:chr21 LN:48129895 @SQ SN:chr22 LN:51304566 @SQ SN:chrX LN:155270560 @SQ SN:chrY LN:59373566 @SQ SN:chrM LN:16571 @PG ID:BBMap PN:BBMap VN:38.96 CL:java -ea -Xmx400g -Xms400g align2.BBMap build=1 overwrite=true fastareadlen=500 -Xmx400g in=NS51360_14_Dex_ktGR_R2_1.trimmed.clean.optdedupe.pcrdedupe.fq.gz in2=NS51360_14_Dex_ktGR_R2_2.trimmed.clean.optdedupe.pcrdedupe.fq.gz ref=/ddn/gs1/shared/dirib/reference_genomes/hg19/hg19canonical.fa path=/ddn/gs1/shared/dirib/reference_genomes/hg19/bbmap_hg19canonical/ out=NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.mapped.tmp.bam outu=NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.unmapped.tmp.bam mappedonly=t trimreaddescriptions=t t=75 maxindel=1 inserttag=t intronlen=999999999 ambig=random minid=0.76 pairedonly=t covstats=NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.mapped.bbmap_covstats.txt covhist=NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.mapped.bbmap_covhist.txt ihist=NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.mapped.bbmap_inserthist.txt statsfile=NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.mapped.bbmap_alignmentReport.txt @PG ID:samtools PN:samtools PP:BBMap VN:1.15 CL:samtools view -S -b -h -@ 64 - @PG ID:samtools.1 PN:samtools PP:samtools VN:1.15 CL:samtools view -h NS51360_14_Dex_ktGR_R2.trimmed.clean.optdedupe.pcrdedupe.hg19.mapped.tmp.bam @PG ID:samtools.2 PN:samtools PP:samtools.1 VN:1.15 CL:samtools view -Shu chr1=Cchr2~chr3 chr4dd chr5< chr6;3 chr7gC| chr8vVchr9jchr10chr114 chr12jchr13VZchr14$fchr15@chr16Abchr17chr18@]chr19<chr20pchr21ggchr22vchrX=A chrYchrM@