[bsmap] @Wed Jan 13 19:38:03 2021 loading reference file: /sibcb2/bioinformatics/iGenome/Bismark/hg19/hg19.fa (format: FASTA) [bsmap] @Wed Jan 13 19:38:23 2021 93 reference seqs loaded, total size 3137161264 bp. 20 secs passed [bsmap] @Wed Jan 13 19:39:08 2021 create seed table. 65 secs passed [bsmap] @Wed Jan 13 19:39:08 2021 Pair-end alignment(8 threads), Input read file #1: RRBS20A041606_R1_val_1.fq.gz (format: gzipped FASTQ) Input read file #2: RRBS20A041606_R2_val_2.fq.gz (format: gzipped FASTQ) Output: STDOUT (format: SAM) [bsmap] @Wed Jan 13 20:09:09 2021 total read pairs: 7088860 total time consumed: 1866 secs aligned pairs: 5285563 (74.6%), unique pairs: 5285563 (74.6%), suppressed non-unique pairs: 804099 (11.3%) unpaired read #1: 300897 (4.2%), unique reads: 300897 (4.2%), suppressed non-unique reads: 950506 (13.4%) unpaired read #2: 206091 (2.9%), unique reads: 206091 (2.9%), suppressed non-unique reads: 959275 (13.5%)