python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks0/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks0.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks100/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks100.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks101/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks101.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks102/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks102.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks103/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks103.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks104/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks104.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks105/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks105.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks106/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks106.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks107/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks107.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks108/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks108.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks109/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks109.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks10/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks10.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks110/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks110.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks111/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks111.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks112/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks112.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks113/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks113.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks114/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks114.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks115/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks115.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks116/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks116.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks117/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks117.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks118/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks118.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks119/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks119.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks11/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks11.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks120/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks120.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks121/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks121.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks122/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks122.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks123/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks123.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks124/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks124.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks125/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks125.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks126/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks126.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks127/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks127.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks12/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks12.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks13/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks13.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks14/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks14.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks15/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks15.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks16/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks16.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks17/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks17.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks18/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks18.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks19/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks19.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks1/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks1.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks20/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks20.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks21/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks21.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks22/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks22.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks23/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks23.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks24/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks24.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks25/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks25.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks26/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks26.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks27/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks27.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks28/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks28.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks29/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks29.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks2/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks2.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks30/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks30.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks31/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks31.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks32/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks32.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks33/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks33.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks34/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks34.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks35/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks35.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks36/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks36.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks37/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks37.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks38/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks38.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks39/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks39.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks3/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks3.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks40/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks40.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks41/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks41.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks42/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks42.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks43/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks43.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks44/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks44.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks45/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks45.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks46/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks46.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks47/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks47.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks48/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks48.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks49/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks49.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks4/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks4.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks50/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks50.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks51/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks51.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks52/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks52.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks53/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks53.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks54/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks54.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks55/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks55.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks56/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks56.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks57/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks57.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks58/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks58.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks59/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks59.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks5/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks5.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks60/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks60.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks61/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks61.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks62/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks62.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks63/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks63.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks64/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks64.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks65/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks65.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks66/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks66.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks67/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks67.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks68/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks68.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks69/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks69.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks6/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks6.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks70/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks70.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks71/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks71.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks72/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks72.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks73/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks73.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks74/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks74.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks75/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks75.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks76/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks76.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks77/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks77.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks78/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks78.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks79/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks79.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks7/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks7.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks80/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks80.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks81/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks81.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks82/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks82.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks83/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks83.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks84/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks84.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks85/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks85.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks86/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks86.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks87/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks87.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks88/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks88.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks89/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks89.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks8/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks8.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks90/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks90.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks91/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks91.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks92/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks92.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks93/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks93.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks94/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks94.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks95/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks95.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks96/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks96.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks97/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks97.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks98/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks98.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks99/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks99.TSV -generic G -excludeContext CG 1
python ~/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py guppy-input-chunks9/tombo.mods.per_read.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa guppy-input-chunks9.TSV -generic G -excludeContext CG 1