cd /N/dc2/projects/marinovg/2014-10-05-prokaryote-ChIP-seq/49-Streptomyces_coelicolor; /N/dc2/projects/marinovg/programs/sratoolkit.2.4.0-1-ubuntu64/bin/fastq-dump.2.4.0 -Z SRR1752661 | python /N/dc2/projects/marinovg/code/trimfastq.py - 36 -stdout | /N/dc2/projects/marinovg/programs/bowtie-1.0.1+hamrhein_nh_patch/bowtie /N/dc2/projects/marinovg/genomes/Bacteria/Streptomyces_coelicolor_A3_2__uid57801/bowtie-indexes/all -p 4 -v 2 -k 2 -m 1 -t --best --strata --sam -q --sam-nh - | samtools view -bT /N/dc2/projects/marinovg/genomes/Bacteria/Streptomyces_coelicolor_A3_2__uid57801/bowtie-indexes/all.fa - | samtools sort - ScbR-30h-ChIP-seq-GSM1582875.36mers.unique
cd /N/dc2/projects/marinovg/2014-10-05-prokaryote-ChIP-seq/49-Streptomyces_coelicolor; /N/dc2/projects/marinovg/programs/sratoolkit.2.4.0-1-ubuntu64/bin/fastq-dump.2.4.0 -Z SRR1752662 | python /N/dc2/projects/marinovg/code/trimfastq.py - 36 -stdout | /N/dc2/projects/marinovg/programs/bowtie-1.0.1+hamrhein_nh_patch/bowtie /N/dc2/projects/marinovg/genomes/Bacteria/Streptomyces_coelicolor_A3_2__uid57801/bowtie-indexes/all -p 4 -v 2 -k 2 -m 1 -t --best --strata --sam -q --sam-nh - | samtools view -bT /N/dc2/projects/marinovg/genomes/Bacteria/Streptomyces_coelicolor_A3_2__uid57801/bowtie-indexes/all.fa - | samtools sort - ScbR2-42h-ChIP-seq-GSM1582876.36mers.unique
cd /N/dc2/projects/marinovg/2014-10-05-prokaryote-ChIP-seq/49-Streptomyces_coelicolor; /N/dc2/projects/marinovg/programs/sratoolkit.2.4.0-1-ubuntu64/bin/fastq-dump.2.4.0 -Z SRR1752663 | python /N/dc2/projects/marinovg/code/trimfastq.py - 36 -stdout | /N/dc2/projects/marinovg/programs/bowtie-1.0.1+hamrhein_nh_patch/bowtie /N/dc2/projects/marinovg/genomes/Bacteria/Streptomyces_coelicolor_A3_2__uid57801/bowtie-indexes/all -p 4 -v 2 -k 2 -m 1 -t --best --strata --sam -q --sam-nh - | samtools view -bT /N/dc2/projects/marinovg/genomes/Bacteria/Streptomyces_coelicolor_A3_2__uid57801/bowtie-indexes/all.fa - | samtools sort - Input-DNA-GSM1582877.36mers.unique