python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_0-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_0.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_100-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_100.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_101-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_101.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_102-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_102.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_103-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_103.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_104-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_104.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_105-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_105.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_106-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_106.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_107-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_107.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_108-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_108.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_109-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_109.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_10-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_10.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_110-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_110.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_111-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_111.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_112-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_112.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_113-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_113.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_114-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_114.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_115-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_115.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_116-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_116.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_117-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_117.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_118-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_118.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_119-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_119.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_11-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_11.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_120-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_120.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_121-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_121.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_122-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_122.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_123-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_123.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_124-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_124.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_125-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_125.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_126-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_126.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_127-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_127.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_128-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_128.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_129-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_129.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_12-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_12.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_130-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_130.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_131-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_131.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_132-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_132.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_133-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_133.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_134-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_134.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_135-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_135.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_136-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_136.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_137-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_137.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_138-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_138.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_139-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_139.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_13-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_13.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_140-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_140.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_141-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_141.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_142-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_142.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_143-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_143.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_144-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_144.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_145-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_145.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_146-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_146.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_147-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_147.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_148-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_148.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_149-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_149.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_14-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_14.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_150-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_150.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_151-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_151.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_152-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_152.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_153-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_153.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_154-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_154.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_155-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_155.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_156-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_156.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_157-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_157.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_158-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_158.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_159-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_159.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_15-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_15.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_160-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_160.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_161-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_161.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_162-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_162.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_163-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_163.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_164-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_164.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_165-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_165.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_166-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_166.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_167-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_167.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_168-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_168.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_169-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_169.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_16-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_16.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_170-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_170.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_171-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_171.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_172-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_172.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_173-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_173.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_174-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_174.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_175-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_175.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_176-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_176.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_177-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_177.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_178-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_178.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_179-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_179.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_17-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_17.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_180-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_180.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_181-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_181.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_182-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_182.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_183-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_183.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_184-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_184.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_185-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_185.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_186-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_186.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_187-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_187.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_188-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_188.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_189-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_189.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_18-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_18.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_190-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_190.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_191-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_191.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_192-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_192.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_193-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_193.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_194-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_194.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_195-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_195.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_196-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_196.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_197-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_197.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_198-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_198.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_199-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_199.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_19-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_19.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_1-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_1.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_200-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_200.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_201-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_201.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_202-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_202.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_203-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_203.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_204-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_204.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_205-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_205.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_206-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_206.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_207-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_207.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_208-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_208.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_209-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_209.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_20-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_20.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_210-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_210.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_211-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_211.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_212-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_212.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_213-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_213.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_214-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_214.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_215-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_215.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_216-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_216.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_217-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_217.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_218-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_218.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_219-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_219.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_21-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_21.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_220-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_220.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_221-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_221.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_222-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_222.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_223-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_223.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_224-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_224.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_225-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_225.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_226-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_226.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_227-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_227.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_228-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_228.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_229-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_229.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_22-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_22.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_230-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_230.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_231-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_231.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_232-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_232.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_233-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_233.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_234-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_234.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_235-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_235.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_236-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_236.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_237-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_237.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_238-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_238.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_239-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_239.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_23-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_23.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_240-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_240.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_241-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_241.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_242-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_242.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_243-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_243.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_244-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_244.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_245-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_245.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_246-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_246.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_247-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_247.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_248-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_248.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_249-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_249.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_24-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_24.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_250-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_250.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_251-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_251.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_252-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_252.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_253-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_253.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_254-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_254.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_255-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_255.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_256-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_256.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_257-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_257.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_258-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_258.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_259-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_259.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_25-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_25.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_260-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_260.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_261-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_261.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_262-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_262.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_263-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_263.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_264-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_264.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_265-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_265.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_266-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_266.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_267-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_267.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_268-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_268.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_269-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_269.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_26-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_26.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_270-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_270.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_271-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_271.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_272-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_272.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_273-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_273.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_274-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_274.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_275-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_275.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_276-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_276.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_277-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_277.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_278-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_278.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_279-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_279.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_27-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_27.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_280-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_280.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_281-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_281.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_282-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_282.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_283-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_283.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_284-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_284.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_285-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_285.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_286-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_286.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_287-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_287.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_288-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_288.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_289-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_289.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_28-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_28.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_290-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_290.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_291-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_291.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_292-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_292.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_293-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_293.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_294-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_294.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_295-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_295.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_296-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_296.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_297-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_297.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_298-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_298.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_299-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_299.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_29-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_29.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_2-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_2.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_300-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_300.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_301-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_301.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_302-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_302.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_303-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_303.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_304-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_304.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_305-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_305.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_306-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_306.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_307-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_307.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_308-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_308.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_309-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_309.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_30-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_30.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_310-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_310.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_311-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_311.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_312-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_312.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_313-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_313.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_314-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_314.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_315-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_315.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_316-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_316.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_317-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_317.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_318-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_318.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_319-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_319.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_31-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_31.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_320-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_320.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_321-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_321.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_322-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_322.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_323-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_323.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_324-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_324.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_325-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_325.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_326-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_326.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_327-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_327.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_328-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_328.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_329-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_329.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_32-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_32.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_330-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_330.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_331-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_331.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_332-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_332.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_333-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_333.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_334-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_334.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_335-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_335.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_336-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_336.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_337-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_337.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_338-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_338.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_339-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_339.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_33-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_33.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_340-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_340.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_341-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_341.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_342-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_342.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_343-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_343.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_344-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_344.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_345-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_345.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_346-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_346.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_347-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_347.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_348-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_348.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_349-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_349.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_34-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_34.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_350-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_350.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_351-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_351.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_352-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_352.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_353-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_353.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_354-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_354.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_355-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_355.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_356-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_356.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_357-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_357.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_358-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_358.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_359-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_359.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_35-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_35.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_360-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_360.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_361-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_361.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_362-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_362.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_363-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_363.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_364-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_364.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_365-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_365.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_366-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_366.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_367-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_367.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_368-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_368.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_369-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_369.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_36-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_36.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_370-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_370.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_371-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_371.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_372-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_372.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_373-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_373.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_374-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_374.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_375-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_375.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_376-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_376.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_377-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_377.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_378-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_378.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_379-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_379.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_37-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_37.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_380-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_380.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_381-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_381.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_382-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_382.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_383-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_383.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_384-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_384.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_385-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_385.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_386-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_386.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_387-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_387.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_388-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_388.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_389-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_389.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_38-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_38.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_390-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_390.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_391-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_391.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_392-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_392.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_393-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_393.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_394-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_394.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_395-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_395.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_396-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_396.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_397-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_397.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_398-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_398.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_399-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_399.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_39-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_39.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_3-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_3.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_400-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_400.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_401-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_401.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_402-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_402.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_403-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_403.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_404-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_404.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_405-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_405.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_406-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_406.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_407-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_407.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_408-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_408.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_409-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_409.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_40-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_40.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_410-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_410.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_411-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_411.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_412-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_412.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_413-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_413.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_414-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_414.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_415-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_415.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_416-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_416.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_417-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_417.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_418-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_418.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_419-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_419.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_41-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_41.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_420-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_420.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_421-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_421.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_422-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_422.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_423-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_423.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_424-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_424.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_425-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_425.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_426-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_426.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_427-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_427.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_428-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_428.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_429-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_429.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_42-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_42.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_430-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_430.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_431-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_431.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_432-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_432.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_433-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_433.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_434-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_434.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_435-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_435.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_436-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_436.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_437-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_437.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_438-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_438.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_439-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_439.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_43-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_43.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_440-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_440.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_441-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_441.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_442-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_442.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_44-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_44.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_45-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_45.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_46-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_46.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_47-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_47.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_48-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_48.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_49-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_49.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_4-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_4.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_50-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_50.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_51-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_51.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_52-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_52.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_53-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_53.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_54-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_54.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_55-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_55.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_56-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_56.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_57-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_57.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_58-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_58.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_59-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_59.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_5-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_5.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_60-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_60.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_61-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_61.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_62-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_62.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_63-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_63.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_64-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_64.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_65-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_65.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_66-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_66.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_67-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_67.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_68-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_68.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_69-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_69.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_6-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_6.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_70-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_70.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_71-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_71.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_72-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_72.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_73-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_73.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_74-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_74.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_75-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_75.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_76-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_76.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_77-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_77.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_78-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_78.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_79-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_79.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_7-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_7.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_80-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_80.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_81-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_81.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_82-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_82.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_83-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_83.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_84-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_84.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_85-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_85.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_86-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_86.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_87-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_87.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_88-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_88.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_89-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_89.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_8-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_8.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_90-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_90.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_91-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_91.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_92-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_92.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_93-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_93.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_94-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_94.m6A.reads  -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAQ23700_af0b38d4_9-guppy/tombo.mods.per_read.alternative.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAQ23700_af0b38d4_9.m6A.reads  -m6A-only -excludeContext CG 1 &