[M::bwa_idx_load_from_disk] read 0 ALT contigs
[M::process] read 556136 sequences (80000280 bp)...
[M::process] read 556208 sequences (80000275 bp)...
[M::mem_process_seqs] Processed 556136 reads in 169.325 CPU sec, 21.126 real sec
[M::process] read 556174 sequences (80000131 bp)...
[M::mem_process_seqs] Processed 556208 reads in 172.818 CPU sec, 21.240 real sec
[M::process] read 556148 sequences (80000233 bp)...
[M::mem_process_seqs] Processed 556174 reads in 174.037 CPU sec, 21.398 real sec
[M::process] read 523265 sequences (75260758 bp)...
[M::mem_process_seqs] Processed 556148 reads in 172.920 CPU sec, 21.243 real sec
[M::mem_process_seqs] Processed 523265 reads in 161.639 CPU sec, 19.989 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_305\tSM:SewardAK_305\tPL:Illumina reference.fasta SewardAK_305.R1.fq.gz
[main] Real time: 110.414 sec; CPU: 854.203 sec