[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 556122 sequences (80000062 bp)...
[M::process] read 556194 sequences (80000019 bp)...
[M::mem_process_seqs] Processed 556122 reads in 160.775 CPU sec, 20.035 real sec
[M::process] read 556082 sequences (80000174 bp)...
[M::mem_process_seqs] Processed 556194 reads in 161.136 CPU sec, 19.796 real sec
[M::process] read 512702 sequences (73750326 bp)...
[M::mem_process_seqs] Processed 556082 reads in 161.323 CPU sec, 19.809 real sec
[M::mem_process_seqs] Processed 512702 reads in 150.118 CPU sec, 18.529 real sec
[main] Version: 0.7.17-r1188
[main] CMD: bwa mem -L 20,5 -t 8 -a -M -T 10 -A 1 -B 4 -O 6 -R @RG\tID:SewardAK_302\tSM:SewardAK_302\tPL:Illumina reference.fasta SewardAK_302.R1.fq.gz
[main] Real time: 83.244 sec; CPU: 636.504 sec