BSMAP v2.73

Start at:  Wed Nov 21 14:31:51 2012

Input reference file: /Users/Shared/data/oyster.v9_M.fa      (format: FASTA)

Load in 60 db seqs, total size 77580364 bp. 1 secs passed

total_kmers: 43046721

Create seed table. 4 secs passed

max number of mismatches: read_length * 8%      max gap size: 0

kmer cut-off ratio:5e-07

max multi-hits: 100     max Ns: 5     seed size: 16     index interval: 4

quality cutoff: 0     base quality char: '!'

min fragment size:28     max fragemt size:500

start from read #1     end at read #4294967295

additional alignment: T in reads => C in reference

mapping strand: ++,-+

Single-end alignment(8 threads)

Input read file: /Users/Shared/data/filtered_Unlabeled_NoIndex_L003_R1wID_trimmed.fastq      (format: FASTQ)

Output file: /Volumes/web/cnidarian/BSMAP_v9_M.BAM      (format: BSP)

Thread #0:      50000 reads finished. 5 secs passed

Thread #1:      100000 reads finished. 5 secs passed

Thread #3:      150000 reads finished. 6 secs passed

Thread #2:      200000 reads finished. 6 secs passed

OUTPUT