python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_0/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_0.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_100/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_100.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_101/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_101.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_102/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_102.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_103/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_103.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_104/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_104.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_105/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_105.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_106/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_106.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_107/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_107.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_108/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_108.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_109/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_109.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_10/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_10.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_110/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_110.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_111/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_111.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_112/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_112.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_113/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_113.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_114/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_114.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_115/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_115.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_116/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_116.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_117/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_117.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_118/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_118.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_119/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_119.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_11/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_11.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_120/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_120.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_121/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_121.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_122/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_122.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_123/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_123.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_124/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_124.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_125/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_125.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_126/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_126.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_127/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_127.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_128/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_128.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_129/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_129.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_12/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_12.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_130/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_130.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_131/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_131.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_132/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_132.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_133/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_133.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_134/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_134.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_135/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_135.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_136/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_136.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_137/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_137.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_138/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_138.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_139/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_139.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_13/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_13.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_140/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_140.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_141/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_141.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_142/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_142.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_143/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_143.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_144/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_144.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_145/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_145.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_146/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_146.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_147/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_147.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_148/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_148.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_149/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_149.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_14/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_14.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_150/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_150.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_151/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_151.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_152/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_152.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_153/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_153.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_154/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_154.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_155/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_155.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_156/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_156.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_157/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_157.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_158/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_158.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_159/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_159.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_15/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_15.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_160/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_160.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_161/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_161.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_162/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_162.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_163/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_163.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_164/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_164.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_165/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_165.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_166/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_166.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_167/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_167.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_168/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_168.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_169/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_169.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_16/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_16.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_170/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_170.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_171/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_171.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_172/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_172.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_173/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_173.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_174/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_174.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_175/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_175.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_176/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_176.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_177/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_177.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_178/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_178.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_179/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_179.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_17/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_17.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_180/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_180.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_181/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_181.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_182/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_182.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_183/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_183.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_184/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_184.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_185/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_185.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_186/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_186.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_187/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_187.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_188/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_188.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_189/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_189.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_18/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_18.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_190/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_190.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_191/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_191.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_192/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_192.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_193/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_193.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_194/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_194.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_195/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_195.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_196/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_196.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_197/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_197.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_198/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_198.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_199/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_199.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_19/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_19.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_1/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_1.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_200/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_200.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_201/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_201.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_202/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_202.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_203/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_203.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_204/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_204.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_205/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_205.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_206/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_206.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_207/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_207.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_208/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_208.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_209/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_209.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_20/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_20.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_210/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_210.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_211/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_211.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_212/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_212.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_213/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_213.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_214/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_214.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_215/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_215.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_216/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_216.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_217/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_217.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_218/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_218.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_219/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_219.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_21/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_21.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_220/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_220.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_221/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_221.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_222/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_222.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_223/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_223.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_224/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_224.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_225/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_225.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_226/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_226.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_227/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_227.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_228/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_228.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_229/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_229.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_22/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_22.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_230/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_230.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_231/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_231.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_232/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_232.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_233/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_233.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_234/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_234.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_235/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_235.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_236/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_236.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_237/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_237.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_238/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_238.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_239/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_239.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_23/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_23.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_240/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_240.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_241/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_241.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_242/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_242.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_243/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_243.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_244/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_244.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_245/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_245.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_246/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_246.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_247/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_247.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_248/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_248.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_249/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_249.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_24/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_24.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_250/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_250.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_251/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_251.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_252/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_252.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_253/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_253.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_254/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_254.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_255/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_255.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_256/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_256.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_257/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_257.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_258/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_258.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_259/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_259.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_25/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_25.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_260/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_260.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_261/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_261.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_262/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_262.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_263/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_263.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_264/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_264.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_265/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_265.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_266/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_266.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_267/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_267.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_268/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_268.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_269/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_269.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_26/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_26.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_270/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_270.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_271/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_271.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_272/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_272.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_273/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_273.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_274/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_274.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_275/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_275.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_276/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_276.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_277/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_277.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_278/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_278.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_279/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_279.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_27/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_27.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_280/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_280.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_281/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_281.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_282/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_282.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_283/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_283.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_284/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_284.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_285/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_285.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_286/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_286.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_287/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_287.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_288/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_288.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_289/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_289.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_28/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_28.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_290/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_290.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_291/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_291.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_292/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_292.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_293/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_293.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_294/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_294.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_295/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_295.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_296/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_296.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_297/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_297.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_298/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_298.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_299/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_299.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_29/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_29.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_2/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_2.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_300/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_300.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_301/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_301.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_302/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_302.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_303/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_303.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_304/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_304.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_305/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_305.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_306/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_306.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_307/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_307.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_308/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_308.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_309/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_309.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_30/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_30.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_310/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_310.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_311/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_311.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_312/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_312.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_313/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_313.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_314/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_314.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_315/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_315.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_316/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_316.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_317/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_317.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_318/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_318.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_319/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_319.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_31/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_31.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_320/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_320.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_321/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_321.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_322/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_322.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_323/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_323.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_324/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_324.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_325/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_325.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_326/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_326.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_327/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_327.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_328/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_328.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_329/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_329.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_32/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_32.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_330/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_330.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_331/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_331.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_332/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_332.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_333/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_333.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_334/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_334.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_335/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_335.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_336/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_336.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_337/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_337.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_338/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_338.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_339/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_339.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_33/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_33.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_340/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_340.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_341/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_341.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_342/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_342.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_343/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_343.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_344/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_344.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_345/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_345.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_346/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_346.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_347/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_347.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_348/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_348.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_349/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_349.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_34/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_34.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_350/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_350.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_351/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_351.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_352/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_352.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_353/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_353.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_354/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_354.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_355/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_355.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_356/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_356.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_357/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_357.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_358/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_358.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_359/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_359.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_35/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_35.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_360/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_360.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_361/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_361.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_362/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_362.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_363/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_363.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_364/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_364.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_365/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_365.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_366/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_366.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_367/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_367.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_368/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_368.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_369/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_369.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_36/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_36.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_370/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_370.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_371/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_371.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_372/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_372.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_373/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_373.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_374/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_374.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_375/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_375.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_376/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_376.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_377/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_377.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_378/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_378.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_379/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_379.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_37/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_37.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_380/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_380.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_381/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_381.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_382/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_382.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_383/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_383.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_384/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_384.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_385/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_385.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_386/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_386.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_387/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_387.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_388/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_388.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_389/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_389.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_38/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_38.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_390/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_390.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_391/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_391.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_392/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_392.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_393/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_393.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_394/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_394.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_395/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_395.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_396/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_396.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_397/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_397.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_398/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_398.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_399/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_399.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_39/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_39.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_3/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_3.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_400/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_400.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_401/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_401.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_402/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_402.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_403/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_403.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_404/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_404.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_405/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_405.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_406/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_406.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_407/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_407.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_408/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_408.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_409/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_409.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_40/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_40.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_410/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_410.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_411/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_411.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_412/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_412.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_413/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_413.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_414/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_414.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_415/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_415.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_416/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_416.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_417/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_417.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_418/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_418.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_419/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_419.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_41/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_41.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_420/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_420.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_421/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_421.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_422/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_422.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_423/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_423.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_424/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_424.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_425/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_425.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_426/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_426.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_427/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_427.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_428/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_428.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_429/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_429.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_42/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_42.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_430/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_430.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_431/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_431.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_432/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_432.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_433/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_433.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_434/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_434.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_435/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_435.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_436/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_436.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_437/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_437.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_438/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_438.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_439/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_439.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_43/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_43.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_440/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_440.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_441/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_441.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_442/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_442.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_443/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_443.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_444/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_444.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_445/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_445.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_446/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_446.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_447/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_447.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_448/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_448.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_449/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_449.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_44/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_44.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_450/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_450.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_451/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_451.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_452/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_452.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_453/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_453.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_454/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_454.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_455/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_455.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_45/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_45.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_46/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_46.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_47/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_47.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_48/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_48.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_49/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_49.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_4/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_4.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_50/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_50.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_51/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_51.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_52/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_52.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_53/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_53.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_54/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_54.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_55/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_55.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_56/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_56.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_57/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_57.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_58/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_58.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_59/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_59.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_5/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_5.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_60/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_60.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_61/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_61.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_62/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_62.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_63/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_63.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_64/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_64.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_65/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_65.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_66/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_66.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_67/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_67.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_68/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_68.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_69/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_69.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_6/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_6.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_70/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_70.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_71/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_71.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_72/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_72.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_73/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_73.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_74/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_74.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_75/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_75.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_76/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_76.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_77/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_77.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_78/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_78.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_79/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_79.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_7/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_7.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_80/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_80.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_81/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_81.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_82/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_82.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_83/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_83.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_84/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_84.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_85/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_85.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_86/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_86.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_87/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_87.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_88/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_88.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_89/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_89.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_8/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_8.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_90/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_90.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_91/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_91.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_92/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_92.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_93/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_93.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_94/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_94.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_95/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_95.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_96/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_96.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_97/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_97.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_98/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_98.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_99/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_99.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_9/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_9.per_read_modified_base_calls.tsv 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_0/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_0.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_100/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_100.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_101/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_101.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_102/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_102.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_103/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_103.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_104/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_104.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_105/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_105.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_106/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_106.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_107/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_107.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_108/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_108.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_109/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_109.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_10/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_10.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_110/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_110.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_111/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_111.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_112/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_112.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_113/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_113.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_114/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_114.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_115/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_115.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_116/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_116.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_117/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_117.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_118/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_118.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_119/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_119.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_11/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_11.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_120/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_120.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_121/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_121.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_122/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_122.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_123/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_123.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_124/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_124.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_125/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_125.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_126/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_126.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_127/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_127.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_128/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_128.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_129/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_129.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_12/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_12.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_130/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_130.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_131/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_131.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_132/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_132.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_133/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_133.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_134/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_134.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_135/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_135.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_136/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_136.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_137/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_137.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_138/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_138.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_139/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_139.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_13/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_13.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_140/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_140.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_141/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_141.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_142/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_142.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_143/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_143.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_144/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_144.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_145/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_145.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_146/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_146.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_147/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_147.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_148/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_148.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_149/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_149.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_14/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_14.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_150/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_150.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_151/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_151.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_152/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_152.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_153/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_153.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_154/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_154.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_155/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_155.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_156/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_156.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_157/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_157.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_158/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_158.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_159/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_159.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_15/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_15.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_160/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_160.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_161/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_161.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_162/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_162.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_163/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_163.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_164/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_164.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_165/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_165.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_166/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_166.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_167/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_167.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_168/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_168.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_169/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_169.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_16/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_16.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_170/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_170.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_171/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_171.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_172/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_172.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_173/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_173.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_174/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_174.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_175/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_175.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_176/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_176.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_177/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_177.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_178/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_178.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_179/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_179.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_17/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_17.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_180/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_180.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_181/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_181.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_182/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_182.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_183/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_183.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_184/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_184.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_185/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_185.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_186/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_186.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_187/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_187.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_188/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_188.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_189/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_189.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_18/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_18.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_190/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_190.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_191/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_191.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_192/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_192.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_193/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_193.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_194/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_194.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_195/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_195.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_196/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_196.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_197/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_197.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_198/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_198.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_199/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_199.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_19/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_19.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_1/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_1.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_200/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_200.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_201/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_201.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_202/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_202.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_203/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_203.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_204/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_204.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_205/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_205.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_206/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_206.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_207/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_207.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_208/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_208.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_209/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_209.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_20/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_20.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_210/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_210.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_211/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_211.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_212/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_212.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_213/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_213.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_214/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_214.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_215/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_215.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_216/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_216.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_217/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_217.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_218/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_218.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_219/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_219.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_21/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_21.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_220/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_220.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_221/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_221.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_222/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_222.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_223/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_223.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_224/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_224.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_225/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_225.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_226/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_226.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_227/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_227.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_228/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_228.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_229/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_229.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_22/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_22.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_230/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_230.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_231/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_231.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_232/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_232.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_233/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_233.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_234/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_234.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_235/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_235.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_236/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_236.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_237/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_237.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_238/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_238.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_239/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_239.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_23/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_23.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_240/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_240.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_241/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_241.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_242/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_242.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_243/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_243.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_244/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_244.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_245/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_245.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_246/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_246.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_247/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_247.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_248/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_248.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_249/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_249.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_24/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_24.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_250/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_250.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_251/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_251.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_252/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_252.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_253/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_253.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_254/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_254.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_255/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_255.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_256/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_256.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_257/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_257.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_258/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_258.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_259/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_259.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_25/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_25.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_260/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_260.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_261/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_261.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_262/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_262.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_263/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_263.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_264/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_264.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_265/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_265.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_266/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_266.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_267/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_267.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_268/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_268.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_269/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_269.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_26/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_26.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_270/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_270.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_271/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_271.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_272/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_272.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_273/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_273.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_274/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_274.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_275/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_275.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_276/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_276.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_277/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_277.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_278/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_278.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_279/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_279.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_27/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_27.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_280/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_280.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_281/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_281.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_282/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_282.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_283/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_283.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_284/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_284.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_285/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_285.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_286/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_286.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_287/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_287.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_288/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_288.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_289/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_289.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_28/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_28.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_290/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_290.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_291/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_291.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_292/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_292.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_293/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_293.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_294/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_294.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_295/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_295.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_296/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_296.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_297/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_297.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_298/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_298.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_299/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_299.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_29/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_29.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_2/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_2.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_300/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_300.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_301/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_301.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_302/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_302.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_303/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_303.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_304/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_304.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_305/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_305.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_306/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_306.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_307/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_307.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_308/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_308.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_309/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_309.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_30/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_30.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_310/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_310.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_311/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_311.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_312/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_312.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_313/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_313.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_314/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_314.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_315/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_315.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_316/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_316.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_317/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_317.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_318/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_318.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_319/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_319.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_31/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_31.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_320/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_320.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_321/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_321.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_322/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_322.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_323/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_323.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_324/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_324.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_325/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_325.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_326/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_326.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_327/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_327.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_328/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_328.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_329/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_329.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_32/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_32.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_330/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_330.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_331/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_331.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_332/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_332.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_333/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_333.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_334/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_334.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_335/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_335.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_336/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_336.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_337/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_337.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_338/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_338.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_339/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_339.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_33/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_33.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_340/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_340.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_341/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_341.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_342/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_342.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_343/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_343.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_344/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_344.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_345/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_345.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_346/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_346.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_347/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_347.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_348/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_348.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_349/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_349.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_34/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_34.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_350/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_350.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_351/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_351.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_352/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_352.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_353/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_353.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_354/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_354.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_355/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_355.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_356/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_356.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_357/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_357.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_358/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_358.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_359/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_359.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_35/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_35.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_360/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_360.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_361/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_361.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_362/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_362.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_363/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_363.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_364/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_364.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_365/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_365.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_366/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_366.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_367/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_367.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_368/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_368.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_369/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_369.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_36/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_36.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_370/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_370.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_371/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_371.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_372/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_372.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_373/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_373.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_374/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_374.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_375/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_375.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_376/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_376.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_377/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_377.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_378/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_378.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_379/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_379.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_37/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_37.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_380/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_380.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_381/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_381.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_382/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_382.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_383/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_383.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_384/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_384.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_385/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_385.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_386/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_386.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_387/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_387.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_388/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_388.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_389/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_389.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_38/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_38.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_390/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_390.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_391/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_391.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_392/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_392.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_393/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_393.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_394/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_394.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_395/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_395.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_396/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_396.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_397/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_397.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_398/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_398.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_399/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_399.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_39/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_39.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_3/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_3.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_400/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_400.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_401/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_401.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_402/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_402.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_403/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_403.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_404/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_404.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_405/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_405.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_406/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_406.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_407/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_407.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_408/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_408.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_409/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_409.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_40/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_40.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_410/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_410.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_411/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_411.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_412/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_412.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_413/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_413.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_414/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_414.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_415/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_415.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_416/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_416.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_417/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_417.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_418/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_418.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_419/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_419.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_41/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_41.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_420/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_420.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_421/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_421.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_422/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_422.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_423/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_423.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_424/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_424.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_425/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_425.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_426/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_426.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_427/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_427.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_428/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_428.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_429/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_429.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_42/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_42.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_430/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_430.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_431/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_431.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_432/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_432.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_433/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_433.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_434/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_434.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_435/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_435.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_436/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_436.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_437/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_437.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_438/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_438.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_439/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_439.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_43/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_43.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_440/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_440.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_441/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_441.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_442/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_442.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_443/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_443.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_444/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_444.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_445/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_445.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_446/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_446.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_447/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_447.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_448/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_448.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_449/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_449.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_44/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_44.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_450/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_450.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_451/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_451.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_452/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_452.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_453/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_453.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_454/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_454.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_455/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_455.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_45/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_45.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_46/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_46.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_47/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_47.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_48/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_48.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_49/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_49.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_4/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_4.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_50/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_50.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_51/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_51.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_52/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_52.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_53/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_53.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_54/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_54.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_55/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_55.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_56/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_56.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_57/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_57.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_58/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_58.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_59/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_59.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_5/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_5.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_60/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_60.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_61/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_61.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_62/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_62.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_63/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_63.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_64/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_64.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_65/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_65.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_66/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_66.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_67/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_67.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_68/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_68.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_69/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_69.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_6/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_6.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_70/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_70.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_71/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_71.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_72/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_72.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_73/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_73.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_74/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_74.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_75/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_75.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_76/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_76.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_77/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_77.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_78/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_78.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_79/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_79.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_7/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_7.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_80/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_80.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_81/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_81.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_82/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_82.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_83/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_83.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_84/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_84.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_85/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_85.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_86/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_86.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_87/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_87.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_88/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_88.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_89/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_89.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_8/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_8.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_90/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_90.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_91/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_91.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_92/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_92.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_93/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_93.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_94/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_94.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_95/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_95.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_96/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_96.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_97/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_97.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_98/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_98.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_99/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_99.per_read_modified_base_calls.flippted.tsv -flipSign 
python ~/code/bisulfite/megalodon-to-single_line.py megalodon-FAW45643_05cfc757_be96c638_9/per_read_modified_base_calls.txt /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa A megalodon-FAW45643_05cfc757_be96c638_9.per_read_modified_base_calls.flippted.tsv -flipSign