[bsmap] @Wed Dec 16 14:45:49 2020 loading reference file: /sibcb2/bioinformatics/iGenome/Bismark/hg19/hg19.fa (format: FASTA) [bsmap] @Wed Dec 16 14:46:24 2020 93 reference seqs loaded, total size 3137161264 bp. 35 secs passed [bsmap] @Wed Dec 16 14:47:57 2020 create seed table. 128 secs passed [bsmap] @Wed Dec 16 14:47:57 2020 Pair-end alignment(8 threads), Input read file #1: RRBS20A041600_R1_val_1.fq.gz (format: gzipped FASTQ) Input read file #2: RRBS20A041600_R2_val_2.fq.gz (format: gzipped FASTQ) Output: STDOUT (format: SAM) [bsmap] @Wed Dec 16 17:10:56 2020 total read pairs: 13632146 total time consumed: 8707 secs aligned pairs: 9766425 (71.6%), unique pairs: 9766425 (71.6%), suppressed non-unique pairs: 1643895 (12.1%) unpaired read #1: 700877 (5.1%), unique reads: 700877 (5.1%), suppressed non-unique reads: 2066657 (15.2%) unpaired read #2: 465432 (3.4%), unique reads: 465432 (3.4%), suppressed non-unique reads: 2094894 (15.4%)