bowtie2-2.1.0
.............\scripts
.............\.......\make_a_thaliana_tair.sh
.............\.......\make_b_taurus_UMD3.sh
.............\.......\make_canFam2.sh
.............\.......\make_c_elegans.sh
.............\.......\make_d_melanogaster.sh
.............\.......\make_e_coli.sh
.............\.......\make_hg18.sh
.............\.......\make_hg19.sh
.............\.......\make_h_sapiens_ncbi36.sh
.............\.......\make_h_sapiens_ncbi37.sh
.............\.......\make_mm10.sh
.............\.......\make_mm9.sh
.............\.......\make_m_musculus_ncbi37.sh
.............\.......\make_rn4.sh
.............\.......\make_s_cerevisiae.sh
.............\.......\convert_quals.pl
.............\.......\gen_2b_occ_lookup.pl
.............\.......\gen_occ_lookup.pl
.............\.......\gen_solqual_lookup.pl
.............\.......\infer_fraglen.pl
.............\doc
.............\...\manual.html
.............\...\README
.............\...\style.css
.............\example
.............\.......\index
.............\.......\.....\lambda_virus.1.bt2
.............\.......\.....\lambda_virus.2.bt2
.............\.......\.....\lambda_virus.3.bt2
.............\.......\.....\lambda_virus.4.bt2
.............\.......\.....\lambda_virus.rev.1.bt2
.............\.......\.....\lambda_virus.rev.2.bt2
.............\.......\reads
.............\.......\.....\longreads.fq
.............\.......\.....\reads_1.fq
.............\.......\.....\reads_2.fq
.............\.......\.....\simulate.pl
.............\.......\reference
.............\.......\.........\lambda_virus.fa
.............\bowtie2
.............\AUTHORS
.............\LICENSE
.............\NEWS
.............\MANUAL
.............\MANUAL.markdown
.............\TUTORIAL
.............\VERSION
.............\bowtie2-build
.............\bowtie2-align
.............\bowtie2-inspect
.............\bowtie2-build-debug
.............\bowtie2-align-debug
.............\bowtie2-inspect-debug